Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011040.1 Kokia drynarioides strain JFW-HI SEQ_126011, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 165772
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 101 characters in sequence are not A, C, G, or T
Found at i:687 original size:16 final size:15
Alignment explanation
Indices: 662--691 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
652 ATCATAAATT
662 TTTTTCTTCTTTTTC
1 TTTTTCTTCTTTTTC
677 TTTTTCTTTCTTTTT
1 TTTTTC-TTCTTTTT
692 ATGTGACTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTCTTCTTTTTC
Found at i:2106 original size:53 final size:53
Alignment explanation
Indices: 2048--2155 Score: 216
Period size: 53 Copynumber: 2.0 Consensus size: 53
2038 TCGTACTCTT
2048 TTATTCTTCGCATGATCCAAAAAAATCTCCATTCTTTCTTGCATTTTTTCCAA
1 TTATTCTTCGCATGATCCAAAAAAATCTCCATTCTTTCTTGCATTTTTTCCAA
2101 TTATTCTTCGCATGATCCAAAAAAATCTCCATTCTTTCTTGCATTTTTTCCAA
1 TTATTCTTCGCATGATCCAAAAAAATCTCCATTCTTTCTTGCATTTTTTCCAA
2154 TT
1 TT
2156 CCGTAACTTC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (53 bp):
TTATTCTTCGCATGATCCAAAAAAATCTCCATTCTTTCTTGCATTTTTTCCAA
Found at i:7328 original size:200 final size:201
Alignment explanation
Indices: 6925--7455 Score: 533
Period size: 200 Copynumber: 2.7 Consensus size: 201
6915 TCAGTATAAC
* * * * ** *
6925 ATCAAATCCTATA-CACCTGAAGTTGCAGTGGGTCAGATTGAAGCTACGAAAGG-ATATCTTATC
1 ATCAAATCCTATATC-CCTAAAGTAGCAGTGGATCAGATTGAAACTAC-AGTGGCAAATCTTATC
* * * * * * * *
6988 TCCCTAAAGTTGCA-ATGAAGCAAGATGAGGCTATAACATCAAATCTTATACCCCT-AATGTTAC
64 TCCCTGAAGTTACAGAAG-AGCAAGATGAGGCTACAAAACCAAATCTTATACCCTTGAA-GTTGC
* * * * * * *
7051 A-ATGGT-TGAATTAAAG-T-TA-CAGGAAAATCTTATCTCCTTGAAGATACAATGGAGCAAGAT
127 AGAGGGTCAG-ATTAATGTTGTAGAAAGAAAATATTATCTCCCTGAAGATACAATGGAGCAAGAT
* * *
7111 GAAGTTATGAT
191 GAAGCTACGAA
* *
7122 ATCAAATCCTATATCCCTAAAGTAGCAGTGGATCTGATTGAAACTACAGTGGCAAATCTTATCTG
1 ATCAAATCCTATATCCCTAAAGTAGCAGTGGATCAGATTGAAACTACAGTGGCAAATCTTATCTC
* ** ** * ** *
7187 CTTGAAGTTGTAGTGGAGTAAGA-GAGGCTAGTACACCAAATCTTATACCCTTGAAGTTGCAGAG
66 CCTGAAGTTACAGAAGAGCAAGATGAGGCTACAAAACCAAATCTTATACCCTTGAAGTTGCAGAG
* *
7251 GGTCAGATTAATGTTGTAGAAAGAAAATATTATCTCCCTGAAGATGCAATGGATCAAGATGAAGC
131 GGTCAGATTAATGTTGTAGAAAGAAAATATTATCTCCCTGAAGATACAATGGAGCAAGATGAAGC
7316 TACGAA
196 TACGAA
* * * *
7322 ATCAAATCCTATATCCTTGAAGTTGTAGTGGATCAGATTGAAACTACAGTGGCAAATCTTATCTC
1 ATCAAATCCTATATCCCTAAAGTAGCAGTGGATCAGATTGAAACTACAGTGGCAAATCTTATCTC
* * * *
7387 CCTGAATTTACAGAAGAGCAATATGAGGCTACAAAACCAAATCTTATACCCTTGAAGTTGTAGTG
66 CCTGAAGTTACAGAAGAGCAAGATGAGGCTACAAAACCAAATCTTATACCCTTGAAGTTGCAGAG
7452 GGTC
131 GGTC
7456 TGATAGTGCT
Statistics
Matches: 273, Mismatches: 51, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
196 33 0.12
197 77 0.28
198 4 0.01
199 2 0.01
200 117 0.43
201 40 0.15
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (201 bp):
ATCAAATCCTATATCCCTAAAGTAGCAGTGGATCAGATTGAAACTACAGTGGCAAATCTTATCTC
CCTGAAGTTACAGAAGAGCAAGATGAGGCTACAAAACCAAATCTTATACCCTTGAAGTTGCAGAG
GGTCAGATTAATGTTGTAGAAAGAAAATATTATCTCCCTGAAGATACAATGGAGCAAGATGAAGC
TACGAA
Found at i:17849 original size:19 final size:19
Alignment explanation
Indices: 17797--17841 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
17787 CTATTAATAT
17797 TTTTATTATTTTATTATTA
1 TTTTATTATTTTATTATTA
* * *
17816 TTTGATTGTTGTATTATTA
1 TTTTATTATTTTATTATTA
17835 TTTTATT
1 TTTTATT
17842 TTATTATTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.71
Consensus pattern (19 bp):
TTTTATTATTTTATTATTA
Found at i:21213 original size:17 final size:16
Alignment explanation
Indices: 21173--21214 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
21163 GAAAAAAATG
21173 ATAAAATAACATGATA
1 ATAAAATAACATGATA
21189 ATATAAATAA-ATGGATAA
1 ATA-AAATAACAT-GAT-A
21207 ATAAAATA
1 ATAAAATA
21215 TAAATGCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 5 0.22
17 14 0.61
18 4 0.17
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.26
Consensus pattern (16 bp):
ATAAAATAACATGATA
Found at i:21363 original size:14 final size:14
Alignment explanation
Indices: 21310--21376 Score: 59
Period size: 14 Copynumber: 4.9 Consensus size: 14
21300 ATATGCTAGG
*
21310 AAATAAATAGAATGG
1 AAATAAATA-AATGA
*
21325 AAA-AAACAAATGA
1 AAATAAATAAATGA
*
21338 ATA-AAATAAAATGA
1 AAATAAAT-AAATGA
21352 AAATAAATAAATGA
1 AAATAAATAAATGA
*
21366 GAAT-AATAAAT
1 AAATAAATAAAT
21377 ATAAATCACA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
13 16 0.36
14 21 0.48
15 7 0.16
ACGTcount: A:0.69, C:0.01, G:0.10, T:0.19
Consensus pattern (14 bp):
AAATAAATAAATGA
Found at i:22871 original size:16 final size:16
Alignment explanation
Indices: 22828--22874 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
22818 TGGGCTTTCA
*
22828 GGTA-TTGGGTTAGGT
1 GGTATTTGGGTTTGGT
* *
22843 GGTATTCGAGTTTGGT
1 GGTATTTGGGTTTGGT
*
22859 GGTGTTTGGGTTTGGT
1 GGTATTTGGGTTTGGT
22875 TTGGGGTTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
15 4 0.16
16 21 0.84
ACGTcount: A:0.09, C:0.02, G:0.45, T:0.45
Consensus pattern (16 bp):
GGTATTTGGGTTTGGT
Found at i:22955 original size:17 final size:17
Alignment explanation
Indices: 22935--22967 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
22925 TGTATTTTGG
22935 TTTTGT-TTGGTTTTTTT
1 TTTTGTCTT-GTTTTTTT
22952 TTTTGTCTTGTTTTTT
1 TTTTGTCTTGTTTTTT
22968 CTCTCGGACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.00, C:0.03, G:0.15, T:0.82
Consensus pattern (17 bp):
TTTTGTCTTGTTTTTTT
Found at i:23634 original size:143 final size:142
Alignment explanation
Indices: 23398--23780 Score: 455
Period size: 143 Copynumber: 2.7 Consensus size: 142
23388 TTTATTTTTT
** *
23398 ATTCCATAACGGACTTCGCCTC-AAATTAAAGTTTCAATATTTAAAAATGTAATTCAAAAAAATC
1 ATTCCATAACAAACTTCGCCTCAAAATTAAAGTTTCAATATTTAAAAATGAAATT-AAAAAAATC
* * *
23462 ATAAGAAACAAGAACTTCGTTATGA-ATCACATTGTAAATTTCCATTTTAACAACTTAAAAATGT
65 ATAAGACACAAGAACTTCGCTAT-ATATCACATGGTAAATTTCCATTTTAACAACTTAAAAATGT
23526 ATACATTATCTGTG
129 ATACATTATCTGTG
** *
23540 ATTCTGTAACAAACTTCGCCTCAAAATTAAAGTTTCAATATTTAAAATTGAAATTGAAAAAAATC
1 ATTCCATAACAAACTTCGCCTCAAAATTAAAGTTTCAATATTTAAAAATGAAATT-AAAAAAATC
* * ** * *
23605 ATAAGGCACAAGAACTTTGCTATATATCACATGGTAAATTTCCATTTTAACCTCTTTAAAATTTA
65 ATAAGACACAAGAACTTCGCTATATATCACATGGTAAATTTCCATTTTAACAACTTAAAAATGTA
** *
23670 TATTTTATCTTTG
130 TACATTATCTGTG
** * * * * **
23683 ATTCCATAACAGGCTTCACCTCAAAATTCAAGTTTTAATATTTAAAAATAAAATTTTAAAAATCA
1 ATTCCATAACAAACTTCGCCTCAAAATTAAAGTTTCAATATTTAAAAATGAAATTAAAAAAATCA
* * *
23748 TAAAAACACATGAACTTCGCTATGTATCACATG
66 T-AAGACACAAGAACTTCGCTATATATCACATG
23781 AATCTGTTAA
Statistics
Matches: 203, Mismatches: 35, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
142 28 0.14
143 175 0.86
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.34
Consensus pattern (142 bp):
ATTCCATAACAAACTTCGCCTCAAAATTAAAGTTTCAATATTTAAAAATGAAATTAAAAAAATCA
TAAGACACAAGAACTTCGCTATATATCACATGGTAAATTTCCATTTTAACAACTTAAAAATGTAT
ACATTATCTGTG
Found at i:24170 original size:98 final size:98
Alignment explanation
Indices: 24050--24246 Score: 261
Period size: 98 Copynumber: 2.0 Consensus size: 98
24040 TCACCTCAAG
* *
24050 ATTCGAGTTTCAATATTTAAAAA-AGAATTTAAAAAAATCATAAGACACAAGAAATTCGCTATGA
1 ATTCGAGTTTCAATATTTAAAAATA-AAATTAAAAAAATCATAAGACACAAGAAATTCACTATGA
* *
24114 ATCGCATGGTAAATTTCTATTTTAACCACTTAAA
65 ATCACATGGTAAATTTCCATTTTAACCACTTAAA
* * * * * *
24148 ATTCGAGTTTTAATATTTAAAAATAAAATTGAAATAATTATAAGACACAAGAACTTCACTATGCA
1 ATTCGAGTTTCAATATTTAAAAATAAAATTAAAAAAATCATAAGACACAAGAAATTCACTATGAA
* * *
24213 TCATATTGTAAATTTCCATTTTAACCTCTTAAA
66 TCACATGGTAAATTTCCATTTTAACCACTTAAA
24246 A
1 A
24247 CTTTATAATT
Statistics
Matches: 85, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
98 84 0.99
99 1 0.01
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.34
Consensus pattern (98 bp):
ATTCGAGTTTCAATATTTAAAAATAAAATTAAAAAAATCATAAGACACAAGAAATTCACTATGAA
TCACATGGTAAATTTCCATTTTAACCACTTAAA
Found at i:24491 original size:143 final size:141
Alignment explanation
Indices: 24145--24599 Score: 471
Period size: 143 Copynumber: 3.2 Consensus size: 141
24135 TTAACCACTT
* * * *
24145 AAAATTCGAGTTTTAATATTTAAAAATAAAATTGAAATAATTATAAGACACAAGAACTTCACTAT
1 AAAATTCGAGTTTGAATATTGAAAAATAAAATTGAAAAAATCATAAGACACAA-AACTTCACTAT
* * * * *
24210 GCATCATATTGTAAATTTCCATTTTAACCTCTTAAAACTTTATAATTTATC-TTA---A-ATAAT
65 GCATCACATGGTAAATTTCCATTTTAACCTCTTAAAAATTTATATTTTATCTTTAGTTACGTAAT
*
24270 GGACTTCGCCTT
130 GGACTTCGCCTC
* * * * * *
24282 AAGATTCGAGTTTCG-ATATTTG-AAAATGAAGTTGTAAAAAATCACAAGACAAAAGAACTTCGC
1 AAAATTCGAGTTT-GAATA-TTGAAAAATAAAATTG-AAAAAATCATAAGACACAA-AACTTCAC
* * * *
24345 TATGCATCACATGGTTAATTTCTATTTTAAGCACTTAAAAATTTATATTTTATCTTTAGTTACGT
62 TATGCATCACATGGTAAATTTCCATTTTAACCTCTTAAAAATTTATATTTTATCTTTAGTTACGT
*
24410 AATGGATTTCGCCTC
127 AATGGACTTCGCCTC
* *
24425 AAAATTCGAGTTTGAATATTGAAAAATAAAATTGAAACAAAACATAAGACACAAAATCTCCACTA
1 AAAATTCGAGTTTGAATATTGAAAAATAAAATTGAAA-AAATCATAAGACACAAAA-CTTCACTA
* * * *
24490 TGCATCACTTGGTAAATTTCCATTTTAACCTCTCAAAATTTTAAATTTTATCTTT-GATT-CTGT
64 TGCATCACATGGTAAATTTCCATTTTAACCTCTTAAAAATTTATATTTTATCTTTAG-TTAC-GT
*
24553 AATGGACTT-GATCTC
127 AATGGACTTCG-CCTC
* * *
24568 AAAATTCGAGTTTTAATATTCAAAAAAAAAAT
1 AAAATTCGAGTTTGAATATTGAAAAATAAAAT
24600 AAAAAGAATT
Statistics
Matches: 261, Mismatches: 42, Indels: 24
0.80 0.13 0.07
Matches are distributed among these distances:
137 25 0.10
138 71 0.27
139 3 0.01
142 13 0.05
143 149 0.57
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (141 bp):
AAAATTCGAGTTTGAATATTGAAAAATAAAATTGAAAAAATCATAAGACACAAAACTTCACTATG
CATCACATGGTAAATTTCCATTTTAACCTCTTAAAAATTTATATTTTATCTTTAGTTACGTAATG
GACTTCGCCTC
Found at i:25147 original size:146 final size:141
Alignment explanation
Indices: 24906--25170 Score: 377
Period size: 146 Copynumber: 1.8 Consensus size: 141
24896 GATGGACTTC
* * *
24906 GCCTCAAAATTTGAATTTCAATATTTAAAAATGAAATTGAAAAAATCATAGGACACAAGAATTTC
1 GCCTCAAAATTAGAATTTCAATATTTAAAAATGAAATTAAAAAAATCATAGGACACAAGAACTTC
* * *
24971 GTTATGAATCACATTGTAAATTTCAATTTTAACAACTTTAAAAATATATACTTTATTTTTTATTC
66 GCTATGAATAACATGGTAAATTTCAATTTTAAC--CTTTAAAAATATATACTTTATTTTTTATTC
25036 TGTAATAGACATT
129 TGTAATAGACATT
* *
25049 GCCTCAAAATTAGAGTTTCAATATTTAAAAATTAAATTAAAAAAAAAATCATAGGACACAAGAAC
1 GCCTCAAAATTAGAATTTCAATATTTAAAAATGAAATT---AAAAAAATCATAGGACACAAGAAC
* * * *
25114 TTCGCTATGAATAACATGGTAAATTTCCATTTTAACTTTTAAAAATTTATATTTTAT
63 TTCGCTATGAATAACATGGTAAATTTCAATTTTAACCTTTAAAAATATATACTTTAT
25171 CTTTGATACC
Statistics
Matches: 107, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
143 35 0.33
144 18 0.17
146 54 0.50
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.37
Consensus pattern (141 bp):
GCCTCAAAATTAGAATTTCAATATTTAAAAATGAAATTAAAAAAATCATAGGACACAAGAACTTC
GCTATGAATAACATGGTAAATTTCAATTTTAACCTTTAAAAATATATACTTTATTTTTTATTCTG
TAATAGACATT
Found at i:25747 original size:143 final size:142
Alignment explanation
Indices: 25285--25759 Score: 492
Period size: 143 Copynumber: 3.3 Consensus size: 142
25275 ACATAATAGC
* * * *
25285 TATTTATT-TTTGATTCCGTAACAGACTCCGCCTCAAAATTTGAGTTTCAATATTTAAAAAAGAA
1 TATTTTTTCTTTGATTCCGTAACAGACTTCGCCTCAAAATTTGAGTTTCAATATTGAAAAAATAA
* * * *
25349 ATTGAAAAAAAT-ATAAGACACAAGAACTTCGCTATGAATCACATTTTAAATTTCCATTTTAACA
66 ATTGAAAAAAATCATAAGACACAAGAACTTCACTATGCATCACA-TGTAAATTTCCATTTTAACC
* *
25413 ACTTAAAAATATA
130 TCTTAAAAATTTA
* * ** * * ** ** *
25426 TACTTTATCTTTGATTTTGTAACATACTTTGCCTCAAAATTCAAAATTCAATATTTG-AAAATTA
1 TATTTTTTCTTTGATTCCGTAACAGACTTCGCCTCAAAATTTGAGTTTCAATA-TTGAAAAAATA
* *
25490 AATTCAAAAAAATCATAAGACACAAGAACTTCACTATGCATCACATTGTAAATTTCCATTTTAAA
65 AATTGAAAAAAATCATAAGACACAAGAACTTCACTATGCATCACA-TGTAAATTTCCATTTTAAC
25555 CTCTTAAAAATTTA
129 CTCTTAAAAATTTA
* * ** * * *
25569 TATTTTATT-TTTGATACCATAATGGATTTCGCCTCAAAATTTGAGTTTGAATATTGAAAAACTA
1 TATTTT-TTCTTTGATTCCGTAACAGACTTCGCCTCAAAATTTGAGTTTCAATATTGAAAAAATA
* * * * *
25633 AATTGAAACAAATCATAAAACAAAAGAAC-TCTATTATGCATCACATGATAAATTTCCATTTGAA
65 AATTGAAAAAAATCATAAGACACAAGAACTTC-ACTATGCATCACATG-TAAATTTCCATTTTAA
* *
25697 CCTTTTAAATATTTA
128 CCTCTTAAAAATTTA
* * * *
25712 TATTTTTTCTTTAATTCCGTAATAAACTTCTCCTCAAAATTTGAGTTT
1 TATTTTTTCTTTGATTCCGTAACAGACTTCGCCTCAAAATTTGAGTTT
25760 AAAAATCAAA
Statistics
Matches: 270, Mismatches: 56, Indels: 14
0.79 0.16 0.04
Matches are distributed among these distances:
141 5 0.02
142 61 0.23
143 203 0.75
144 1 0.00
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (142 bp):
TATTTTTTCTTTGATTCCGTAACAGACTTCGCCTCAAAATTTGAGTTTCAATATTGAAAAAATAA
ATTGAAAAAAATCATAAGACACAAGAACTTCACTATGCATCACATGTAAATTTCCATTTTAACCT
CTTAAAAATTTA
Found at i:29345 original size:27 final size:29
Alignment explanation
Indices: 29315--29368 Score: 85
Period size: 27 Copynumber: 1.9 Consensus size: 29
29305 CCGAGGGGTA
*
29315 AAATGGTAATTTT-GG-ATTTTCGGGGAC
1 AAATGGTAATTTTCGGAATATTCGGGGAC
29342 AAATGGTAATTTTCGGAATATTCGGGG
1 AAATGGTAATTTTCGGAATATTCGGGG
29369 TTAAAAAGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 13 0.54
28 2 0.08
29 9 0.38
ACGTcount: A:0.28, C:0.07, G:0.30, T:0.35
Consensus pattern (29 bp):
AAATGGTAATTTTCGGAATATTCGGGGAC
Found at i:29471 original size:59 final size:59
Alignment explanation
Indices: 29408--29715 Score: 198
Period size: 59 Copynumber: 5.4 Consensus size: 59
29398 TAATTTTGAG
* *
29408 AGTTTCGAGG-TCGAAAATGGAGTTTTTGGACA-TTCGAGGGCAAAATTGTAATTTTTGGA
1 AGTTT-GAGGTTCGAAAATGGAATTTTTGGA-AGTTCGAGGGCAAAAATGTAATTTTTGGA
* * * * **
29467 AGTTTTAGGTTTGAAAATGGAATTTTTGGAAGTTCGAGGGTAAAAATGTGATTTTCAGA
1 AGTTTGAGGTTCGAAAATGGAATTTTTGGAAGTTCGAGGGCAAAAATGTAATTTTTGGA
* * * * * *
29526 GGTTCGAGGGT-AAAAATGGAATTTTTGG--GGTC----G---AAATGGAATTTTTGGA
1 AGTTTGAGGTTCGAAAATGGAATTTTTGGAAGTTCGAGGGCAAAAATGTAATTTTTGGA
* * * * * * * * *
29575 AGTTCGAGGGT-AAAAATGTAATTTTTAGAGGTTCGTGGGTAAAAATGGAATTTTTGGA
1 AGTTTGAGGTTCGAAAATGGAATTTTTGGAAGTTCGAGGGCAAAAATGTAATTTTTGGA
* * *
29633 AGTTTCAGGGTT-GAAAATGGAATTTTTGGAAGTTTCG-GGGTTAAAAATGGAATTTTTGGA
1 AGTTTGA-GGTTCGAAAATGGAATTTTTGGAAG-TTCGAGGG-CAAAAATGTAATTTTTGGA
* * *
29693 AATTTAAGGGT-GAAAATGGAATT
1 AGTTTGAGGTTCGAAAATGGAATT
29716 GTTAGTAGTT
Statistics
Matches: 203, Mismatches: 32, Indels: 28
0.77 0.12 0.11
Matches are distributed among these distances:
49 37 0.18
51 3 0.01
52 1 0.00
55 1 0.00
56 3 0.01
58 41 0.20
59 89 0.44
60 28 0.14
ACGTcount: A:0.31, C:0.04, G:0.30, T:0.35
Consensus pattern (59 bp):
AGTTTGAGGTTCGAAAATGGAATTTTTGGAAGTTCGAGGGCAAAAATGTAATTTTTGGA
Found at i:29513 original size:29 final size:29
Alignment explanation
Indices: 29421--29785 Score: 265
Period size: 29 Copynumber: 12.7 Consensus size: 29
29411 TTCGAGGTCG
* *
29421 AAAATGGAGTTTTTGGACA-TTCGAGGGCA
1 AAAATGGAATTTTTGGA-AGTTCGAGGGTA
* * ** * *
29450 AAATTGTAATTTTTGGAAGTTTTAGGTTTG
1 AAAATGGAATTTTTGGAAGTTCGAGG-GTA
29480 AAAATGGAATTTTTGGAAGTTCGAGGGTA
1 AAAATGGAATTTTTGGAAGTTCGAGGGTA
** *
29509 AAAATGTG-ATTTTCAGAGGTTCGAGGGTA
1 AAAATG-GAATTTTTGGAAGTTCGAGGGTA
*
29538 AAAATGGAATTTTTGG--GGTC----G--
1 AAAATGGAATTTTTGGAAGTTCGAGGGTA
29559 -AAATGGAATTTTTGGAAGTTCGAGGGTA
1 AAAATGGAATTTTTGGAAGTTCGAGGGTA
* * * *
29587 AAAATGTAATTTTTAGAGGTTCGTGGGTA
1 AAAATGGAATTTTTGGAAGTTCGAGGGTA
*
29616 AAAATGGAATTTTTGGAAGTTTC-AGGGTTG
1 AAAATGGAATTTTTGGAAG-TTCGAGGG-TA
29646 AAAATGGAATTTTTGGAAGTTTCG-GGGTTA
1 AAAATGGAATTTTTGGAAG-TTCGAGGG-TA
* ** *
29676 AAAATGGAATTTTTGGAAATTTAAGGGTG
1 AAAATGGAATTTTTGGAAGTTCGAGGGTA
* * * *
29705 AAAATGGAATTGTTAGTAGTTTCG-GGGTCG
1 AAAATGGAATTTTTGGAAG-TTCGAGGGT-A
* *
29735 AAAATGGAAATTCTGGAAGTTCG-GGTGTA
1 AAAATGGAATTTTTGGAAGTTCGAGG-GTA
* *
29764 AAAATGTAATTTTCGGACAGTT
1 AAAATGGAATTTTTGGA-AGTT
29786 TAGGGACCTC
Statistics
Matches: 264, Mismatches: 51, Indels: 41
0.74 0.14 0.12
Matches are distributed among these distances:
20 15 0.06
22 3 0.01
23 1 0.00
26 1 0.00
27 3 0.01
28 2 0.01
29 140 0.53
30 99 0.38
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.35
Consensus pattern (29 bp):
AAAATGGAATTTTTGGAAGTTCGAGGGTA
Found at i:29615 original size:78 final size:78
Alignment explanation
Indices: 29481--29631 Score: 275
Period size: 78 Copynumber: 1.9 Consensus size: 78
29471 TTAGGTTTGA
*
29481 AAATGGAATTTTTGGAAGTTCGAGGGTAAAAATGTGATTTTCAGAGGTTCGAGGGTAAAAATGGA
1 AAATGGAATTTTTGGAAGTTCGAGGGTAAAAATGTAATTTTCAGAGGTTCGAGGGTAAAAATGGA
29546 ATTTTTGGGGTCG
66 ATTTTTGGGGTCG
* *
29559 AAATGGAATTTTTGGAAGTTCGAGGGTAAAAATGTAATTTTTAGAGGTTCGTGGGTAAAAATGGA
1 AAATGGAATTTTTGGAAGTTCGAGGGTAAAAATGTAATTTTCAGAGGTTCGAGGGTAAAAATGGA
29624 ATTTTTGG
66 ATTTTTGG
29632 AAGTTTCAGG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 70 1.00
ACGTcount: A:0.32, C:0.04, G:0.30, T:0.34
Consensus pattern (78 bp):
AAATGGAATTTTTGGAAGTTCGAGGGTAAAAATGTAATTTTCAGAGGTTCGAGGGTAAAAATGGA
ATTTTTGGGGTCG
Found at i:29652 original size:30 final size:30
Alignment explanation
Indices: 29559--29790 Score: 201
Period size: 30 Copynumber: 7.9 Consensus size: 30
29549 TTTGGGGTCG
29559 AAATGGAATTTTTGGAAG-TTCGAGGG-TAA
1 AAATGGAATTTTTGGAAGTTTC-AGGGTTAA
* * * *
29588 AAATGTAATTTTTAG-AGGTTC-GTGGGTAA
1 AAATGGAATTTTTGGAAGTTTCAG-GGTTAA
*
29617 AAATGGAATTTTTGGAAGTTTCAGGGTTGA
1 AAATGGAATTTTTGGAAGTTTCAGGGTTAA
*
29647 AAATGGAATTTTTGGAAGTTTCGGGGTTAA
1 AAATGGAATTTTTGGAAGTTTCAGGGTTAA
* * *
29677 AAATGGAATTTTTGGAAATTTAAGGG-TGA
1 AAATGGAATTTTTGGAAGTTTCAGGGTTAA
* * * * **
29706 AAATGGAATTGTTAGTAGTTTCGGGGTCGA
1 AAATGGAATTTTTGGAAGTTTCAGGGTTAA
* *
29736 AAATGGAAATTCTGGAAG-TTC-GGGTGTAA
1 AAATGGAATTTTTGGAAGTTTCAGGGT-TAA
* *
29765 AAATGTAATTTTCGGACAGTTT-AGGG
1 AAATGGAATTTTTGGA-AGTTTCAGGG
29791 ACCTCTAGGG
Statistics
Matches: 162, Mismatches: 31, Indels: 18
0.77 0.15 0.09
Matches are distributed among these distances:
27 1 0.01
28 8 0.05
29 70 0.43
30 77 0.48
31 6 0.04
ACGTcount: A:0.32, C:0.04, G:0.30, T:0.34
Consensus pattern (30 bp):
AAATGGAATTTTTGGAAGTTTCAGGGTTAA
Found at i:29739 original size:59 final size:58
Alignment explanation
Indices: 29559--29755 Score: 234
Period size: 59 Copynumber: 3.3 Consensus size: 58
29549 TTTGGGGTCG
** * * *
29559 AAATGGAATTTTTGGAAGTTCGAGGGTAAAAATGTAATTTTTAGAGGTTCGTGGGT-AA
1 AAATGGAATTTTTGGAAGTTTAAGGGTGAAAATGGAATTTTTAGAGTTTCG-GGGTCAA
* * *
29617 AAATGGAATTTTTGGAAGTTTCAGGGTTGAAAATGGAATTTTTGGAAGTTTCGGGGTTAA
1 AAATGGAATTTTTGGAAGTTTAAGGG-TGAAAATGGAATTTTTAG-AGTTTCGGGGTCAA
* * *
29677 AAATGGAATTTTTGGAAATTTAAGGGTGAAAATGGAATTGTTAGTAGTTTCGGGGTCGA
1 AAATGGAATTTTTGGAAGTTTAAGGGTGAAAATGGAATTTTTAG-AGTTTCGGGGTCAA
* *
29736 AAATGGAAATTCTGGAAGTT
1 AAATGGAATTTTTGGAAGTT
29756 CGGGTGTAAA
Statistics
Matches: 120, Mismatches: 16, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
58 24 0.20
59 64 0.53
60 32 0.27
ACGTcount: A:0.32, C:0.04, G:0.29, T:0.35
Consensus pattern (58 bp):
AAATGGAATTTTTGGAAGTTTAAGGGTGAAAATGGAATTTTTAGAGTTTCGGGGTCAA
Found at i:30437 original size:65 final size:65
Alignment explanation
Indices: 30327--30457 Score: 190
Period size: 65 Copynumber: 2.0 Consensus size: 65
30317 TCCAGCCACT
* * * * **
30327 GTGGCTCCGCTGCACGTGCCTCGTCGGTCGGCGCGCGCGGTCACCATGCTTCGACGTCCGTCATC
1 GTGGCTCCGCTGCACGCGCCTCGTCGATCGACACGCGCGACCACCATGCTTCGACGTCCGTCATC
* *
30392 GTGGCTCCGCTGCACGCGCCTCGTCGATCGACACGCGTGACCACCATGCTTTGACGTCCGTCATC
1 GTGGCTCCGCTGCACGCGCCTCGTCGATCGACACGCGCGACCACCATGCTTCGACGTCCGTCATC
30457 G
1 G
30458 GTTGGTACAC
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
65 58 1.00
ACGTcount: A:0.11, C:0.38, G:0.30, T:0.21
Consensus pattern (65 bp):
GTGGCTCCGCTGCACGCGCCTCGTCGATCGACACGCGCGACCACCATGCTTCGACGTCCGTCATC
Found at i:30834 original size:3 final size:3
Alignment explanation
Indices: 30828--30886 Score: 55
Period size: 3 Copynumber: 19.3 Consensus size: 3
30818 AGAAAACTTT
* * * * * *
30828 TTA TTA TTA TTA GTCA TTA ATA ATA ATA ATA ATA TTA TTA TTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
30874 TTA TTA TTA TTA T
1 TTA TTA TTA TTA T
30887 CAAAACAGTT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
3 49 0.96
4 2 0.04
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (3 bp):
TTA
Found at i:30909 original size:9 final size:9
Alignment explanation
Indices: 30829--30920 Score: 51
Period size: 9 Copynumber: 10.0 Consensus size: 9
30819 GAAAACTTTT
*
30829 TATTATTAT
1 TATTATTAA
*
30838 TAGTCATTAA
1 TA-TTATTAA
* *
30848 TAATAATAA
1 TATTATTAA
* *
30857 TAATATTAT
1 TATTATTAA
*
30866 TATTATTAT
1 TATTATTAA
*
30875 TATTATTAT
1 TATTATTAA
* *
30884 TATCA-AAA
1 TATTATTAA
*
30892 CAGTTATTAA
1 TA-TTATTAA
30902 TATTATTAA
1 TATTATTAA
30911 TAGTTATTAA
1 TA-TTATTAA
30921 AACGTTTTGA
Statistics
Matches: 64, Mismatches: 15, Indels: 7
0.74 0.17 0.08
Matches are distributed among these distances:
8 2 0.03
9 45 0.70
10 17 0.27
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.50
Consensus pattern (9 bp):
TATTATTAA
Found at i:31602 original size:18 final size:19
Alignment explanation
Indices: 31581--31623 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 19
31571 TTTAAACTTT
31581 AAATTTATAA-TAAATTTA
1 AAATTTATAAGTAAATTTA
31599 AAATTT-TAAGTAAATTTA
1 AAATTTATAAGTAAATTTA
31617 AAATTTA
1 AAATTTA
31624 AACTTAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 3 0.13
18 20 0.87
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
AAATTTATAAGTAAATTTA
Found at i:31607 original size:42 final size:40
Alignment explanation
Indices: 31561--31659 Score: 117
Period size: 42 Copynumber: 2.4 Consensus size: 40
31551 TTGGAAATTA
* * * *
31561 TTTAAATAGATTTAAACTTTAAATTTATAATAAATTTAAAAT
1 TTTAAATAAATTTAAAATTTAAACTTAAAATAAATTT--AAT
*
31603 TTTAAGTAAATTTAAAATTTAAACTTAAAATAAATTTAAT
1 TTTAAATAAATTTAAAATTTAAACTTAAAATAAATTTAAT
*
31643 TTTAAAATGAATTTAAA
1 TTT-AAATAAATTTAAA
31660 TCCTGTTGGG
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
40 6 0.12
41 11 0.22
42 32 0.65
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (40 bp):
TTTAAATAAATTTAAAATTTAAACTTAAAATAAATTTAAT
Found at i:31618 original size:24 final size:24
Alignment explanation
Indices: 31591--31650 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
31581 AAATTTATAA
* *
31591 TAAATTTAAAATTTTAAGTAAATT
1 TAAATTTAAAATTTAAAATAAATT
*
31615 TAAAATTT-AAACTTAAAATAAATT
1 T-AAATTTAAAATTTAAAATAAATT
*
31639 TAATTTTAAAAT
1 TAAATTTAAAAT
31651 GAATTTAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
23 5 0.17
24 18 0.62
25 6 0.21
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (24 bp):
TAAATTTAAAATTTAAAATAAATT
Found at i:31637 original size:17 final size:17
Alignment explanation
Indices: 31617--31659 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
31607 AGTAAATTTA
31617 AAATTTAAACTTAAAAT
1 AAATTTAAACTTAAAAT
**
31634 AAATTTAATTTTAAAAT
1 AAATTTAAACTTAAAAT
*
31651 GAATTTAAA
1 AAATTTAAA
31660 TCCTGTTGGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
AAATTTAAACTTAAAAT
Found at i:31641 original size:11 final size:11
Alignment explanation
Indices: 31580--31641 Score: 51
Period size: 11 Copynumber: 5.8 Consensus size: 11
31570 ATTTAAACTT
*
31580 TAAATTTATAA
1 TAAATTTAAAA
31591 TAAATTTAAAA
1 TAAATTTAAAA
*
31602 T---TTT-AAG
1 TAAATTTAAAA
31609 TAAATTTAAAA
1 TAAATTTAAAA
*
31620 TTTAAACTTAAAA
1 --TAAATTTAAAA
31633 TAAATTTAA
1 TAAATTTAA
31642 TTTTAAAATG
Statistics
Matches: 40, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
7 3 0.08
8 3 0.08
10 3 0.08
11 21 0.52
13 10 0.25
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:32343 original size:206 final size:201
Alignment explanation
Indices: 32087--32627 Score: 582
Period size: 201 Copynumber: 2.6 Consensus size: 201
32077 TCCCCGTACT
* ** *
32087 TCATCAGGGAGCTAACTGTTTTATTACTTCGACCTGCTTCTCAATATCTCATCAAGAAGCTGGGG
1 TCATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTGGGG
* *
32152 TTCGAAGATTTGCTCATATCGAGCATGGGTTTGATTTGGTCTTCTTCTCAGTACCTCATCAGGAA
66 TTCGAAGATTTGCTCAT-T-GAGC-T--GTTTGATTTGGTCTACTTCTCAGTATCTCATCAGGAA
*** ** * * **
32217 GATGACCGTGTCGTTTGTTTCAATCCGTTTCTCTGTATCTCACCAGGAAGACGAATTTGGTTGAC
126 GATGACCACCTCACTTGTTTCAATCCGCTTCTCTGTACCTCACCAGGAAGACGAATTTGGTCCAC
32282 TTCTCAGTATC
191 TTCTCAGTATC
* * *
32293 TCATCAGGAAGCTAACCATTTTATTGCTTTGACCTGCTTCTCAGTATCTCATCAAGAAGTTGGGG
1 TCATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTGGGG
* * ** * * * *
32358 TTCGAAGATTTGCTTGCGTTGAGC--CTCAAGTTGGTATACTTCTCTGTATCTCATCAGAAAGAT
66 TTCGAAGATTTGC-T-CATTGAGCTGTTTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGAT
* * * * *
32421 GACCACCTCACTTGTTTTAATTCGCTTCTTTGTGCCTCATCAGGAAGACGAATTTGGTCCACTTC
129 GACCACCTCACTTGTTTCAATCCGCTTCTCTGTACCTCACCAGGAAGACGAATTTGGTCCACTTC
32486 TCAGTATC
194 TCAGTATC
* * * * * **
32494 TCATCAGGAAGCTAACCTTTTTATTACTTCGACCTACTTCTCAGTGTCTCATCAGGAGGCTAAGG
1 TCATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTGGGG
*
32559 TTCGAAGATTTGCTCGCTTTGAGCCTTGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAG
66 TTCGAAGATTTGCT--CATTGAG-C-TG--T--TTGATTTGGTCTACTTCTCAGTATCTCATCAG
32624 GAAG
123 GAAG
32628 CTAACCATTT
Statistics
Matches: 275, Mismatches: 49, Indels: 19
0.80 0.14 0.06
Matches are distributed among these distances:
200 1 0.00
201 164 0.60
202 1 0.00
206 75 0.27
207 2 0.01
208 2 0.01
209 30 0.11
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (201 bp):
TCATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTGGGG
TTCGAAGATTTGCTCATTGAGCTGTTTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGA
CCACCTCACTTGTTTCAATCCGCTTCTCTGTACCTCACCAGGAAGACGAATTTGGTCCACTTCTC
AGTATC
Found at i:32691 original size:123 final size:123
Alignment explanation
Indices: 32472--32750 Score: 414
Period size: 123 Copynumber: 2.3 Consensus size: 123
32462 AGGAAGACGA
* *
32472 ATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTTATTACTTCGACCTACTTCTCA
1 ATTTGGTCTACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGACCTACTTCTCA
* * * * * * *
32537 GTGTCTCATCAGGAGGCTAAGGTTCGAAGATTTGCTCGCTTTGAGCCTTGTTTCATTG
66 ATATCTCACCAGGAAGCTAAGGTTCGAAGATTTGCTCACATTGAGCCTCGTTTCATTG
* *
32595 ATTTGGTCTACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTATTTCGACCTTCTTCTCA
1 ATTTGGTCTACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGACCTACTTCTCA
*
32660 ATATCTCACCAGGAAGCTAAGGTTTGAAGATTTGCTCACATTGAGCCTCGTTTCATTG
66 ATATCTCACCAGGAAGCTAAGGTTCGAAGATTTGCTCACATTGAGCCTCGTTTCATTG
** * *
32718 ATTCAGTCTTCTTCTCGGTATCTCATCAGGAAG
1 ATTTGGTCTACTTCTCAGTATCTCATCAGGAAG
32751 ATGACCGCGT
Statistics
Matches: 140, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
123 140 1.00
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.37
Consensus pattern (123 bp):
ATTTGGTCTACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGACCTACTTCTCA
ATATCTCACCAGGAAGCTAAGGTTCGAAGATTTGCTCACATTGAGCCTCGTTTCATTG
Found at i:42583 original size:143 final size:143
Alignment explanation
Indices: 42321--42586 Score: 351
Period size: 143 Copynumber: 1.9 Consensus size: 143
42311 GAAAACTATT
* * * *
42321 AGACACAAGAAGTTCACTATGTATCACATTGTAAATTTCAATTTTAATCTCATAACAAAATATAT
1 AGACACAAGAACTTCACTATGCATCACATGGTAAATTTCAATTTTAACCTCATAACAAAATATAT
* *
42386 TTTATACTTGATTTTGTAACGAATTTCGCCTCAAAATTCGAATTTGAATCTTTAAAAATGAAATT
66 TTTATACTTGATTTTGTAACAAATTTCGCCTCAAAATTCGAATTTGAATATTTAAAAATGAAATT
42451 GTAAAAAATCATA
131 GTAAAAAATCATA
* * *
42464 AGACACAAGAACTT-AGCTCTGCATCACATGGTAAATTTCTATTTTAACCTCTTAA-AAAATTAT
1 AGACACAAGAACTTCA-CTATGCATCACATGGTAAATTTCAATTTTAACCTCATAACAAAA-TAT
* ** *
42527 ATTTTAT-CTTTGATTTTGTAACAAATTTTGCCTC-AAATTTTAAGTTTTAATATTTAAAAA
64 ATTTTATAC-TTGATTTTGTAACAAATTTCGCCTCAAAATTCGAA-TTTGAATATTTAAAAA
42587 AAATTAAAAA
Statistics
Matches: 106, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
142 13 0.12
143 93 0.88
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (143 bp):
AGACACAAGAACTTCACTATGCATCACATGGTAAATTTCAATTTTAACCTCATAACAAAATATAT
TTTATACTTGATTTTGTAACAAATTTCGCCTCAAAATTCGAATTTGAATATTTAAAAATGAAATT
GTAAAAAATCATA
Found at i:42633 original size:143 final size:142
Alignment explanation
Indices: 42323--42636 Score: 350
Period size: 143 Copynumber: 2.2 Consensus size: 142
42313 AAACTATTAG
* * *
42323 ACACAAGAAGTTCA-CTATGTATCACATTGTAAATTTCAATTTTAATCTCATAACAAAATATATT
1 ACACAAGAACTT-AGCTATGTATCACATGGTAAATTTCAATTTTAACCTCATAACAAAATATATT
* * *
42387 TTATACTTGATTTTGTAACGAATTTCGCCTCAAAATTCGAATTTGAATCTTTAAAAATGAAATTG
65 TTATACTTGATTTTGTAACAAATTTCGCCTCAAAATTCGAATTTGAATATTTAAAAA-GAAATTA
* *
42452 TAAAAAATCATAAG
129 AAAAAAATCATAAA
* * * *
42466 ACACAAGAACTTAGCTCTGCATCACATGGTAAATTTCTATTTTAACCTCTTAA-AAAATTATATT
1 ACACAAGAACTTAGCTATGTATCACATGGTAAATTTCAATTTTAACCTCATAACAAAA-TATATT
* ** *
42530 TTAT-CTTTGATTTTGTAACAAATTTTGCCTC-AAATTTTAAGTTTTAATATTTAAAAA-AAATT
65 TTATAC-TTGATTTTGTAACAAATTTCGCCTCAAAATTCGAA-TTTGAATATTTAAAAAGAAATT
42592 AAAAAGAAATCATAAAA
128 AAAAA-AAATCAT-AAA
* * * *
42609 AGACATGAACTTCGTTATGTATCACATG
1 ACACAAGAACTTAGCTATGTATCACATG
42637 AATATGTTAA
Statistics
Matches: 143, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
141 8 0.06
142 20 0.14
143 115 0.80
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (142 bp):
ACACAAGAACTTAGCTATGTATCACATGGTAAATTTCAATTTTAACCTCATAACAAAATATATTT
TATACTTGATTTTGTAACAAATTTCGCCTCAAAATTCGAATTTGAATATTTAAAAAGAAATTAAA
AAAAATCATAAA
Found at i:43340 original size:485 final size:485
Alignment explanation
Indices: 42386--43503 Score: 1330
Period size: 485 Copynumber: 2.3 Consensus size: 485
42376 CAAAATATAT
* * * * * *
42386 TTTATACTTGATTTTGTAAC-GAATTTCGCCTCAAAATTCGAATTTGAAT-CTTTAAAAAT-GAA
1 TTTATATTTGATTCTGTAACGGACTTT-ACCTCAAAATTCGAATTTCAATAC--TAAAATTCGAA
* * *** * * *
42448 ATTGTAAAAAATCATAAGACACAAGAACTTAGCT-CTGCATCACATGGT-AAATTTCTATTTTAA
63 TTTGAAAAAAATCATAAGACACAAGAACACCGCTAC-GAATCACATGATAAAATTT-AATTTTAA
* * * * * *** ** * * * * *
42511 CCTCTTAAAAAATTATATTTTATCTTTGATTTTGTAACAAATTTTGCCTCAAATTTTAAGTTTTA
126 CCACTTAAAAAATTATACTTTCTCTTTGATTCTATAACAGGCTTCACCTTAAAATTCAAATTTCA
** * * * *
42576 ATATTT-AAA-AAAAATTAAAAAGAAATCATAAAAAGACATGAACTTCGTTATGTATCACATGAA
191 ATATTTCAAATTGAATTTGAAGA-AAATCATAAAAAGACATGAACTTCGTTACGTATCACATGAA
* * *
42639 TATGTTAAAAAGGTTGGCAACCCTAAATATCCAAGTGGGTGGTGAAAGATTTGAAATTTAACATT
255 TATGTTAAAAAGGTTGGCAACCCTAAAGATCCAAGTAGGTGGTGAAAGATTTGAAATCTAACATT
* *
42704 CGTCAAACCCCCTAATTGCAATCATCAAACTTTATTAGTGTAGTACTAATTTTGTTCTTATGATA
320 CGTCAAACCCCCTAATTGCAATCATCAAACTTAATTAGTGTAGTACTAATATTGTTCTTATGATA
* * * *
42769 ATTACCAAATTAGGCAAACTTTAGTTCTACAAGGGTAGGTCTTTTACAAAATCTCAACATATTCA
385 ATTAACAAATTAGGCAAAATTTAGTTATACAAGGGTAGGTCTTTCACAAAATCTCAACATATTCA
* *
42834 CAAATAGGCTTGTCGTCAACACTTACATAATTGCTA
450 CAAATAGGCTTGTCCTCAACACTTACATAATAGCTA
* * * *
42870 TTTATCTTTGATTCTGTAATGGA-TTTCACCTCAAAATTCGAGTTTTAATAACTAAAA-TCGAAT
1 TTTATATTTGATTCTGTAACGGACTTT-ACCTCAAAATTCGAATTTCAAT-ACTAAAATTCGAAT
* * *
42933 TTGAAAAAAATCGTAAGACACAAGAACACCGCTACGAATCACATGATAAATTTTCATTTTAACCA
64 TTGAAAAAAATCATAAGACACAAGAACACCGCTACGAATCACATGATAAAATTTAATTTTAACCA
*
42998 CTTAAAAATTTATACTTTCTCTTTGATTCTATAACAGGCTTCACCTTAAAATTCAAATTTCAATA
129 CTTAAAAAATTATACTTTCTCTTTGATTCTATAACAGGCTTCACCTTAAAATTCAAATTTCAATA
*
43063 TTTCAAATTGAATTTGAAGAAAATCATAAAAATACATGAACTTCGTTACGTATCACATGAATATG
194 TTTCAAATTGAATTTGAAGAAAATCATAAAAAGACATGAACTTCGTTACGTATCACATGAATATG
*
43128 TTAAAAAGGTTGGCAACCCT-AAGATCCAAGTAGGTGGTGAAA-ATATTCGAAATCTAACATTTG
259 TTAAAAAGGTTGGCAACCCTAAAGATCCAAGTAGGTGGTGAAAGAT-TT-GAAATCTAACATTCG
* * * * * *
43191 TCAAACCCCTTAATTGGAATCATCAAGCTTAATTAGTTTTGTACTAATATTGTT-TTCATTATAA
322 TCAAACCCCCTAATTGCAATCATCAAACTTAATTAGTGTAGTACTAATATTGTTCTT-ATGATAA
* * * * *
43255 TTAACAATTTCGGCAAAATTTTGTTATGCAAGGGTAGGTCTTTCACAAAA-CATCAACATATTGA
386 TTAACAAATTAGGCAAAATTTAGTTATACAAGGGTAGGTCTTTCACAAAATC-TCAACATATTCA
*
43319 -AAGATTAGG-TTGTCCTCAACACTTACATTATAGCTA
450 CAA-A-TAGGCTTGTCCTCAACACTTACATAATAGCTA
* * * *
43355 TTTATATTTGATTCTTTAACGGACTTTGCCTCAAAATTCGAATTTCAATATTAAAATTTGAATTT
1 TTTATATTTGATTCTGTAACGGACTTTACCTCAAAATTCGAATTTCAATACTAAAATTCGAATTT
* * *
43420 GAAAAAAATCATAAGACACAAGAACATCGCTATGAATCACATGTTAAAATTTAATTTTAACCACT
66 GAAAAAAATCATAAGACACAAGAACACCGCTACGAATCACATGATAAAATTTAATTTTAACCACT
43485 TAAAAAATTATACTTTCTC
131 TAAAAAATTATACTTTCTC
43504 CTTCATTTTG
Statistics
Matches: 539, Mismatches: 79, Indels: 31
0.83 0.12 0.05
Matches are distributed among these distances:
483 3 0.01
484 180 0.33
485 341 0.63
486 15 0.03
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (485 bp):
TTTATATTTGATTCTGTAACGGACTTTACCTCAAAATTCGAATTTCAATACTAAAATTCGAATTT
GAAAAAAATCATAAGACACAAGAACACCGCTACGAATCACATGATAAAATTTAATTTTAACCACT
TAAAAAATTATACTTTCTCTTTGATTCTATAACAGGCTTCACCTTAAAATTCAAATTTCAATATT
TCAAATTGAATTTGAAGAAAATCATAAAAAGACATGAACTTCGTTACGTATCACATGAATATGTT
AAAAAGGTTGGCAACCCTAAAGATCCAAGTAGGTGGTGAAAGATTTGAAATCTAACATTCGTCAA
ACCCCCTAATTGCAATCATCAAACTTAATTAGTGTAGTACTAATATTGTTCTTATGATAATTAAC
AAATTAGGCAAAATTTAGTTATACAAGGGTAGGTCTTTCACAAAATCTCAACATATTCACAAATA
GGCTTGTCCTCAACACTTACATAATAGCTA
Found at i:43587 original size:81 final size:81
Alignment explanation
Indices: 43435--43592 Score: 194
Period size: 81 Copynumber: 2.0 Consensus size: 81
43425 AAATCATAAG
* *
43435 ACACAAGAACATCGCTATGAATCACATGTTAAAATTTAATTTTAACCACTTAAAAAATTATACTT
1 ACACAAGAACATCGCTATGAATCACATGGTAAAATTTAATTTTAAACACTTAAAAAATTATACTT
*
43500 TCTCCTTCATTTTGGA
66 TATCCTTCATTTTGGA
* * * * * *
43516 ACACAAGAACTTCGCTATGCATTACATGGT-AAATTTCTATTTTAAACTCTT-AAAAATTAATAT
1 ACACAAGAACATCGCTATGAATCACATGGTAAAATTT-AATTTTAAACACTTAAAAAATT-ATAC
*
43579 TTTATCCTTGATTT
64 TTTATCCTTCATTT
43593 CGTAATGGAT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
80 13 0.20
81 52 0.80
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.39
Consensus pattern (81 bp):
ACACAAGAACATCGCTATGAATCACATGGTAAAATTTAATTTTAAACACTTAAAAAATTATACTT
TATCCTTCATTTTGGA
Found at i:44292 original size:143 final size:144
Alignment explanation
Indices: 44069--44340 Score: 322
Period size: 143 Copynumber: 1.9 Consensus size: 144
44059 CCGTAACGGG
* * * * * *
44069 TTTCACCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTTTAAAAAATCATATGACACAAGA
1 TTTCACCACAAAACTCGAATTTCAATATTTAAAAATGAAAATTGAAAAAATCATAAGACACAAGA
* * * **
44134 ATTTCGTTATACATCACATGGTTAATTTTTA-TTTTAAACACTT-AAAATTTATATTTTA-CTTT
66 ATCTCGCTATACATCACATGGTAAATTTCGAGTTTT-AACACTTAAAAATTTATATTTTATCTTT
44196 TTATTACATAACAGA
130 TTATTACATAACAGA
*
44211 TTTCACCACAAAACTCGAATTTGAATATTTAAAAAT-AAAATTGAAGCAAAATCATAA-AGCACA
1 TTTCACCACAAAACTCGAATTTCAATATTTAAAAATGAAAATTGAA--AAAATCATAAGA-CACA
* * *
44274 AGAA-CTCTGCTATGCATCACATGGTAAATTTCGAGTTTTAATATTTAAAAATTTATATTTTATC
63 AGAATCTC-GCTATACATCACATGGTAAATTTCGAGTTTTAACACTTAAAAATTTATATTTTATC
44338 TTT
127 TTT
44341 GATTCTTTAG
Statistics
Matches: 108, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
141 7 0.06
142 35 0.32
143 43 0.40
144 19 0.18
145 4 0.04
ACGTcount: A:0.41, C:0.13, G:0.08, T:0.38
Consensus pattern (144 bp):
TTTCACCACAAAACTCGAATTTCAATATTTAAAAATGAAAATTGAAAAAATCATAAGACACAAGA
ATCTCGCTATACATCACATGGTAAATTTCGAGTTTTAACACTTAAAAATTTATATTTTATCTTTT
TATTACATAACAGA
Found at i:45168 original size:484 final size:486
Alignment explanation
Indices: 44234--45231 Score: 1139
Period size: 484 Copynumber: 2.1 Consensus size: 486
44224 CTCGAATTTG
* * * * * * * *
44234 AATATTTAAAAATAAAATTGAAGCAAAATCATAA-AGCACAAGAACTCTGCTATGCATCACATGG
1 AATAATTAAAAATGAAATTGAA--AAAATCATAAGA-TAGAAGAACTCAGTTATGAATCAAATGG
* ** * *
44298 TAAA-TTTCGAGTTTTAA-TATTTAAAAATTTATATTTTATCTTTGATTCTTTAGTAGTCTTCGC
63 TAAATTTTC-A-TTTTAACCACGTAAAAATTTATATTTTATCTTTGATTCTGTAATAGTCTTCGC
* * *
44361 CTCAAAATTCGCGTTTTAATATTTAAAAATAAAATTAAAAAGAAATCATAAAAAACACATGAACT
126 CTCAAAATTCGAGTTTCAATATTTAAAAATAAAATTAAAAAGAAACCATAAAAAACACATGAACT
* * ** * *
44426 TAGCTATGTATCACATGATTCTATTAAAAACGTTGGTAACCCTAACTATCCAAATGGATGGTGAA
191 TAGCTATGTATCACATCAATCTATTAAAAACGTTGACAACCCTAACGATCAAAATGGATGGTGAA
* * * * **
44491 AAGATTGGTAATGCAACATTTGTCAAACCGCCTAATTGCAATCATCAAACTTTATTCTTGAAGTA
256 AAGATTCGAAATGCAACATTTGTCAAACCGCCTAATTGCAATCATCAAACCTAATTAGTGAAGTA
*
44556 CTAATTGTTTTTCATGATAAGTACCAAATTGGGCAAACTTTAGTTCTACAAGGGTAGGTCTTTTA
321 CTAATTGTTTTTCATGATAAGTACCAAATTAGGCAAACTTTAGTTCTACAAGGGTAGGTCTTTTA
* * * * ** *
44621 CAAAACGTCAACATATAGGTAAATTTAGTTGTCCTCAACACTTACATAATAGTTATTTATCTTTT
386 CAAAACATCAACATATAGGCAAATTGAGTTGTCCTCAACACTTACAAAATAGCGATTTATCTTTG
* *
44686 ATTTCGT-ATCGAATTTCGCCTCAAAATTTAAGTTTG
451 ATTTCGTAAT-GAACTTCGCCTCAAAATTTAAGTTTC
* * *
44722 AATAATTAATAATGAATTTTAAAAAATCATAAGATAGAAGAACTCAGTTATGAATCAAATGGTAA
1 AATAATTAAAAATGAAATTGAAAAAATCATAAGATAGAAGAACTCAGTTATGAATCAAATGGTAA
* *
44787 ATTTTCATTTTAACCACGTAAAAATTTATATTTT-CCTTTTGATTCTGTAATAGAT-TTTGCCTC
66 ATTTTCATTTTAACCACGTAAAAATTTATATTTTATC-TTTGATTCTGTAATAG-TCTTCGCCTC
* * ** * *
44850 AAAATTTGAGTTTCAATATTTAAAAAATAAAATT-GAAA-AAACCAT-AAAAACATGTGAGCTTT
129 AAAATTCGAGTTTCAATATTT-AAAAATAAAATTAAAAAGAAACCATAAAAAACACATGAACTTA
* * * *
44912 GTTATGTATCATATCAATCTATTAAAAAGGTTGACAACCTTAA-GATCAAAATAGG-TGGTGAAA
193 GCTATGTATCACATCAATCTATTAAAAACGTTGACAACCCTAACGATCAAAAT-GGATGGTGAAA
* * *
44975 AGATTCGAAAT-CTAACATTTGTCAAACC-CCTTATGTGGAATCATCAAACCTAATTAGTGTTA-
257 AGATTCGAAATGC-AACATTTGTCAAACCGCCTAAT-TGCAATCATCAAACCTAATTAGTG-AAG
** *
45037 TA-TGAATAT-TTCTTTCATGATATTTACCAAATTAGGCAAACTTTAGTTCTGCAAGGGTAGGTC
319 TACT-AAT-TGTT-TTTCATGATAAGTACCAAATTAGGCAAACTTTAGTTCTACAAGGGTAGGTC
* *
45100 TTTTACAAAACATCAACATATTGGCAAATTG-GATTGTCCTCAACATTTACAAAATAGCGATTTA
381 TTTTACAAAACATCAACATATAGGCAAATTGAG-TTGTCCTCAACACTTACAAAATAGCGATTTA
* * *
45164 TCTTTGATTTCGTAATGGACTTCGTCTCAAAATTTGAGTTTC
445 TCTTTGATTTCGTAATGAACTTCGCCTCAAAATTTAAGTTTC
*
45206 AATATTTAAAAATGAAATTGAAAAAA
1 AATAATTAAAAATGAAATTGAAAAAA
45232 GTTATAACTT
Statistics
Matches: 427, Mismatches: 68, Indels: 34
0.81 0.13 0.06
Matches are distributed among these distances:
482 7 0.02
483 66 0.15
484 208 0.49
485 15 0.04
486 96 0.22
487 18 0.04
488 17 0.04
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (486 bp):
AATAATTAAAAATGAAATTGAAAAAATCATAAGATAGAAGAACTCAGTTATGAATCAAATGGTAA
ATTTTCATTTTAACCACGTAAAAATTTATATTTTATCTTTGATTCTGTAATAGTCTTCGCCTCAA
AATTCGAGTTTCAATATTTAAAAATAAAATTAAAAAGAAACCATAAAAAACACATGAACTTAGCT
ATGTATCACATCAATCTATTAAAAACGTTGACAACCCTAACGATCAAAATGGATGGTGAAAAGAT
TCGAAATGCAACATTTGTCAAACCGCCTAATTGCAATCATCAAACCTAATTAGTGAAGTACTAAT
TGTTTTTCATGATAAGTACCAAATTAGGCAAACTTTAGTTCTACAAGGGTAGGTCTTTTACAAAA
CATCAACATATAGGCAAATTGAGTTGTCCTCAACACTTACAAAATAGCGATTTATCTTTGATTTC
GTAATGAACTTCGCCTCAAAATTTAAGTTTC
Found at i:45562 original size:143 final size:142
Alignment explanation
Indices: 45268--45656 Score: 453
Period size: 143 Copynumber: 2.7 Consensus size: 142
45258 TAACAACTTA
* * * *
45268 AAAATATATACTTTATCGTTGATTCTGTAACAGACTTTGCCTCAAAATTCAAGTTTCAATAATTA
1 AAAATTTATATTTTATCCTTGATTCTGTAACAGACTTTGCCTCAAAATTCAAGTTTCAATATTTA
* * * * * * *
45333 AAAAAGAAATTGGAAAAAATCATTAAAACACAAGAACTTCGCTATGAATCACATGGTAAATTTCC
66 AAAATGATATTGAAAAAAATCATT-AGACACAAGAACTTCACCATGAATCACAAGGTAAATTTCC
**
45398 ATTTTATCCACAT
130 ATTTTAAACACAT
* * *
45411 AAAATTTATATTTTCTCTTTGATTCTGTAACAGACTTTGCCTCAAAATTCGAGTTTCAATATTTA
1 AAAATTTATATTTTATCCTTGATTCTGTAACAGACTTTGCCTCAAAATTCAAGTTTCAATATTTA
* *
45476 AAAATGATATTGAAAAAAATCATTTGACACAAGAACTTCACCATGCATCACAAGGTAAATTTCCA
66 AAAATGATATTGAAAAAAATCATTAGACACAAGAACTTCACCATGAATCACAAGGTAAATTTCCA
* *
45541 TTTTAAACTCTT
131 TTTTAAACACAT
* * * *
45553 AAAATTTTATATTTTATCCTTGATTCCGTAACA-AATTTCGCCTCGAAATTCAAG-TTCGAATCT
1 AAAA-TTTATATTTTATCCTTGATTCTGTAACAGACTTT-GCCTCAAAATTCAAGTTTC-AATAT
* * *
45616 TTTAAAAT-ATAATTTTAAAAAAATCATAAGACACAA-AACTT
63 TTAAAAATGAT-A-TTGAAAAAAATCATTAGACACAAGAACTT
45657 AGCTCTACAC
Statistics
Matches: 211, Mismatches: 30, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
142 56 0.27
143 135 0.64
144 20 0.09
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (142 bp):
AAAATTTATATTTTATCCTTGATTCTGTAACAGACTTTGCCTCAAAATTCAAGTTTCAATATTTA
AAAATGATATTGAAAAAAATCATTAGACACAAGAACTTCACCATGAATCACAAGGTAAATTTCCA
TTTTAAACACAT
Found at i:48751 original size:143 final size:142
Alignment explanation
Indices: 48228--48869 Score: 493
Period size: 143 Copynumber: 4.5 Consensus size: 142
48218 TTTGTAATGG
* *
48228 ACTTCACCTCAAAATTCGAGTTTCAATATTTAAAAATTAAATTGAAAAAAGTCATAAGACACAAG
1 ACTTCTCCTCAAAATTCGAGTTTCAATATTTAAAAATAAAATTGAAAAAA-TCATAAGACACAAG
* * * *
48293 AACTTCGCTATG-AGTCACATGGTAAATTTCTATTTTAACCACTT-AAAATTTATACTTT-CTCA
65 AACTTCGCTAAGCA-TCACATAGTAAATTTCAATTTTAACCACTTAAAAATTTATACTTTAC-CT
** *
48355 TTGATTTTGT-ACCA
128 TTGATTTCATAACGA
* * * * * * *
48369 GTCTT-TGCCTTAAAAATCGTGTTTTAATATTTAAAAATAAAATTGAAAAAATCATAAGATAGAA
1 -ACTTCT-CCTCAAAATTCGAGTTTCAATATTTAAAAATAAAATTGAAAAAATCATAAGACACAA
* * * ** * * * * **
48433 GAACTTCACTATGCATCACATGGTAAATTTCCCTGTTAACCTCTTAAAAAATTATATTTTTTC-T
64 GAACTTCGCTAAGCATCACATAGTAAATTTCAATTTTAACCACTTAAAAATTTATACTTTACCTT
* * * *
48497 TAAATTCTATAAGGG
129 TGATTTC-ATAACGA
*** * *
48512 ACTTCGATTCAAAATTCGAGTTTCAATATTT--AAA-AAAAGT-AAAAAATCTTAAGACACAAGA
1 ACTTCTCCTCAAAATTCGAGTTTCAATATTTAAAAATAAAATTGAAAAAATCATAAGACACAAGA
* * * * * * * *
48573 AGTTCGCTATGCATCACACAGTTAATTTCAATTTTAAACACTTTAAAATTTATATTTTACCTTTT
66 ACTTCGCTAAGCATCACATAGTAAATTTCAATTTTAACCACTTAAAAATTTATACTTTACCTTTG
* *
48638 ATTACGTAACGA
131 ATTTCATAACGA
* * * * *
48650 ATTTCTCCTCAAAATTTGAGTTTGAATATTTAAAAATAAAATTGAAACAAATCGTAAGACAGAAG
1 ACTTCTCCTCAAAATTCGAGTTTCAATATTTAAAAATAAAATTGAAA-AAATCATAAGACACAAG
* * * * * * *
48715 AACTCCGTTAACCATCACATAGTAAATTTTC-ATTTTAACCTCTGAAAAATTTCTACTTTATCTT
65 AACTTCGCTAAGCATCACATAGTAAA-TTTCAATTTTAACCACTTAAAAATTTATACTTTACCTT
48779 TGATTTCATAAC-A
129 TGATTTCATAACGA
* * * * *
48792 GACTTCACCT-AAAATTTTGAGTTTTAATATTTAAAAATAAAATTAAAAAGAAATCATAA-AAAC
1 -ACTTCTCCTCAAAA-TTCGAGTTTCAATATTTAAAAATAAAATT-GAAA-AAATCATAAGACAC
48855 ATATGAACTTCGCTA
62 A-A-GAACTTCGCTA
48870 TGTATCATAT
Statistics
Matches: 389, Mismatches: 92, Indels: 35
0.75 0.18 0.07
Matches are distributed among these distances:
138 94 0.24
139 10 0.03
140 6 0.02
141 59 0.15
142 87 0.22
143 108 0.28
144 16 0.04
145 9 0.02
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.36
Consensus pattern (142 bp):
ACTTCTCCTCAAAATTCGAGTTTCAATATTTAAAAATAAAATTGAAAAAATCATAAGACACAAGA
ACTTCGCTAAGCATCACATAGTAAATTTCAATTTTAACCACTTAAAAATTTATACTTTACCTTTG
ATTTCATAACGA
Found at i:48824 original size:281 final size:281
Alignment explanation
Indices: 48206--48828 Score: 661
Period size: 281 Copynumber: 2.2 Consensus size: 281
48196 ATAATAGCTA
** * *
48206 TTTATCTTTGATTTTGTAATGGACTTCACCTCAAAATTCGAGTTTCAATATTTAAAAATTAAATT
1 TTTATCTTTGATTTCATAACGGACTTCACCTCAAAATTCGAGTTTCAATATTT-AAAA--AAAGT
** * *
48271 GAAAAAAGTCATAAGACACAAGAACTTCGCTATGAGTCACATGGTAAATTTCTATTTTAACCACT
63 GAAAAAAGTCATAAGACACAAGAACTTCGCTATGAGTCACACAGTAAATTTCAATTTTAAACACT
** * * * *
48336 TAAAATTTATACTTTCTCATTGATTTTGTACCAGTCTTTGCCTTAAAAATCGTGTTTTAATATTT
128 TAAAATTTATACTTTCTCATTGATTACGTACCAATCTTTGCCTCAAAAATCGAGTTTGAATATTT
* * ** * *
48401 AAAAATAAAATTGAAAAAATCATAAGATAGAAGAACTTCACTATGCATCACATGGTAAATTTCCC
193 AAAAATAAAATTGAAAAAATCATAAGACAGAAGAACTCCACTAACCATCACATAGTAAATTTCCA
* *
48466 TGTTAACCTCTTAAAAAATTATAT
258 TGTTAACCTCTGAAAAAATTATAC
* * * * *
48490 TTTTTC-TTAAATTCTATAAGGGACTTCGA-TTCAAAATTCGAGTTTCAATATTTAAAAAAAGT-
1 TTTATCTTTGATTTC-ATAACGGACTTC-ACCTCAAAATTCGAGTTTCAATATTTAAAAAAAGTG
* * *
48552 AAAAAA-TCTTAAGACACAAGAAGTTCGCTATGCA-TCACACAGTTAATTTCAATTTTAAACACT
64 AAAAAAGTCATAAGACACAAGAACTTCGCTATG-AGTCACACAGTAAATTTCAATTTTAAACAC-
* * * * * *
48615 TTAAAATTTATATTTTAC-CTTTTATTACGTAACGAAT-TTCT-CCTCAAAATTTGAGTTTGAAT
127 TTAAAATTTATACTTT-CTCATTGATTACGT-ACCAATCTT-TGCCTCAAAAATCGAGTTTGAAT
* **
48677 ATTTAAAAATAAAATTGAAACAAATCGTAAGACAGAAGAACTCCGTTAACCATCACATAGTAAAT
189 ATTTAAAAATAAAATTGAAA-AAATCATAAGACAGAAGAACTCCACTAACCATCACATAGTAAAT
* * * *
48742 TTTCATTTTAACCTCTGAAAAATTTCTAC
253 TTCCATGTTAACCTCTGAAAAAATTATAC
* * *
48771 TTTATCTTTGATTTCATAACAGACTTCACCT-AAAATTTTGAGTTTTAATATTTAAAAA
1 TTTATCTTTGATTTCATAACGGACTTCACCTCAAAA-TTCGAGTTTCAATATTTAAAAA
48829 TAAAATTAAA
Statistics
Matches: 278, Mismatches: 50, Indels: 25
0.79 0.14 0.07
Matches are distributed among these distances:
279 47 0.17
280 73 0.26
281 104 0.37
282 6 0.02
283 9 0.03
284 38 0.14
285 1 0.00
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.37
Consensus pattern (281 bp):
TTTATCTTTGATTTCATAACGGACTTCACCTCAAAATTCGAGTTTCAATATTTAAAAAAAGTGAA
AAAAGTCATAAGACACAAGAACTTCGCTATGAGTCACACAGTAAATTTCAATTTTAAACACTTAA
AATTTATACTTTCTCATTGATTACGTACCAATCTTTGCCTCAAAAATCGAGTTTGAATATTTAAA
AATAAAATTGAAAAAATCATAAGACAGAAGAACTCCACTAACCATCACATAGTAAATTTCCATGT
TAACCTCTGAAAAAATTATAC
Found at i:49377 original size:141 final size:139
Alignment explanation
Indices: 49146--49609 Score: 519
Period size: 143 Copynumber: 3.3 Consensus size: 139
49136 GATTTCACCA
*
49146 CAAAATTCGAGTTTCAATAATTAAAAATGAAATTGAAAAAATCATAAGACACAAGAACTT-CTAT
1 CAAAATTCGAGTTTCAATATTTAAAAATGAAATTGAAAAAATCAT--GACACAAGAACTTAC--T
* * *
49210 ATGCATCACATGGTAAATTTTCATTTTAACCTCTTTAAAATTTATACTTTATCTTAAATTCCATA
62 ATGCATCACATGGTAAATTTTCATTTTAACCTCTTAAAAATTTATACTTTATCTTAAATTTCGTA
*
49275 ACCAACTTCGCCT
127 ACAAACTTCGCCT
* *
49288 TAAAATTAGAGTTTCAATATTTAAAAAAT-AAATTGTAAAAAATCATGACACAAGAACTTAGCTA
1 CAAAATTCGAGTTTCAATATTT-AAAAATGAAATTG-AAAAAATCATGACACAAGAACTTA-CTA
* * * * **
49352 TGCATCACATGGTAAATTTTAATTTTAAACC-ATTAAAAATGTATA-TTTCGTCTTTTATTTCGT
63 TGCATCACATGGTAAATTTTCATTTT-AACCTCTTAAAAATTTATACTTT-ATCTTAAATTTCGT
**
49415 AACGTA-TATCGCCT
126 AACAAACT-TCGCCT
* * * *
49429 CAAAAATCGAGTTTGAATAGTTAAAAATGAAATTGAAAAAAATCACAAGACACTAA-AACTTCAC
1 CAAAATTCGAGTTTCAATATTTAAAAATGAAATTG-AAAAAAT--CATGACAC-AAGAACTT-AC
* * *
49493 TATGCATCACATGGTAAATTTCCATTTTAACCTCTTAAAAATTTACACTTTATCTTAAATTTTGT
61 TATGCATCACATGGTAAATTTTCATTTTAACCTCTTAAAAATTTATACTTTATCTTAAATTTCGT
*
49558 AACAAACTTCACCT
126 AACAAACTTCGCCT
* *
49572 CAAAATTCGAGTTTTAATATTTAAAAATAAAATT-AAAA
1 CAAAATTCGAGTTTCAATATTTAAAAATGAAATTGAAAA
49610 GTAAATTATA
Statistics
Matches: 270, Mismatches: 37, Indels: 31
0.80 0.11 0.09
Matches are distributed among these distances:
140 10 0.04
141 104 0.39
142 33 0.12
143 116 0.43
144 7 0.03
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.34
Consensus pattern (139 bp):
CAAAATTCGAGTTTCAATATTTAAAAATGAAATTGAAAAAATCATGACACAAGAACTTACTATGC
ATCACATGGTAAATTTTCATTTTAACCTCTTAAAAATTTATACTTTATCTTAAATTTCGTAACAA
ACTTCGCCT
Found at i:53141 original size:39 final size:39
Alignment explanation
Indices: 53095--53193 Score: 171
Period size: 39 Copynumber: 2.5 Consensus size: 39
53085 TTAAATATGG
53095 TTTTAATGTGTCTTAGTTTGATACATATTTAATAGTTGT
1 TTTTAATGTGTCTTAGTTTGATACATATTTAATAGTTGT
*
53134 TTTTAATGTGTCTTATTTTGATACATATTTAATAGTTGT
1 TTTTAATGTGTCTTAGTTTGATACATATTTAATAGTTGT
* *
53173 TTTTAAGGTGTCTAAGTTTGA
1 TTTTAATGTGTCTTAGTTTGA
53194 GACAAATTAA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.25, C:0.05, G:0.16, T:0.54
Consensus pattern (39 bp):
TTTTAATGTGTCTTAGTTTGATACATATTTAATAGTTGT
Found at i:53275 original size:32 final size:32
Alignment explanation
Indices: 53239--53301 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
53229 AACCGAAATA
* * *
53239 AATTAGCTGATTAATGTGTTTTAGGTACATGC
1 AATTAGCTGATTAATATATTTCAGGTACATGC
53271 AATTAGCTGATTAATATATTTCAGGTACATG
1 AATTAGCTGATTAATATATTTCAGGTACATG
53302 TATGGATGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.40
Consensus pattern (32 bp):
AATTAGCTGATTAATATATTTCAGGTACATGC
Found at i:53600 original size:10 final size:10
Alignment explanation
Indices: 53585--53617 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
53575 TCTAGTCTAG
53585 TCCATTCAGC
1 TCCATTCAGC
*
53595 TCCATTCGGC
1 TCCATTCAGC
53605 TCCATTCAGC
1 TCCATTCAGC
53615 TCC
1 TCC
53618 TTACTTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.15, C:0.42, G:0.12, T:0.30
Consensus pattern (10 bp):
TCCATTCAGC
Found at i:57254 original size:14 final size:14
Alignment explanation
Indices: 57237--57339 Score: 77
Period size: 14 Copynumber: 7.3 Consensus size: 14
57227 AGGGTTTAGT
57237 GTTTCAAATTTAAG
1 GTTTCAAATTTAAG
*
57251 GTTTCGAA-TTAAG
1 GTTTCAAATTTAAG
57264 GATTTCAAAGTTTAAG
1 G-TTTCAAA-TTTAAG
* *
57280 GTTT-AATGTTTAGG
1 GTTTCAA-ATTTAAG
**
57294 GTTTTGAATTTAAG
1 GTTTCAAATTTAAG
** *
57308 GTTT-AGGGTTTAGG
1 GTTTCA-AATTTAAG
57322 GTTTCAAATTTAAG
1 GTTTCAAATTTAAG
57336 GTTT
1 GTTT
57340 AAGGGTTATA
Statistics
Matches: 68, Mismatches: 14, Indels: 14
0.71 0.15 0.15
Matches are distributed among these distances:
13 6 0.09
14 51 0.75
15 5 0.07
16 6 0.09
ACGTcount: A:0.28, C:0.04, G:0.23, T:0.45
Consensus pattern (14 bp):
GTTTCAAATTTAAG
Found at i:57285 original size:7 final size:7
Alignment explanation
Indices: 57259--57343 Score: 50
Period size: 7 Copynumber: 11.9 Consensus size: 7
57249 AGGTTTCGAA
57259 TTAAGGAT
1 TTAAGG-T
*
57267 TTCAAAGT
1 TT-AAGGT
57275 TTAAGGT
1 TTAAGGT
*
57282 TTAATGT
1 TTAAGGT
*
57289 TTAGGGTT
1 TTAAGG-T
57297 TTGAA--T
1 TT-AAGGT
57303 TTAAGGT
1 TTAAGGT
*
57310 TTAGGGT
1 TTAAGGT
*
57317 TTAGGGT
1 TTAAGGT
*
57324 TTCAA-AT
1 TT-AAGGT
57331 TTAAGGT
1 TTAAGGT
57338 TTAAGG
1 TTAAGG
57344 GTTATAAGTA
Statistics
Matches: 60, Mismatches: 10, Indels: 15
0.71 0.12 0.18
Matches are distributed among these distances:
5 2 0.03
6 5 0.08
7 40 0.67
8 9 0.15
9 4 0.07
ACGTcount: A:0.28, C:0.02, G:0.26, T:0.44
Consensus pattern (7 bp):
TTAAGGT
Found at i:57311 original size:28 final size:28
Alignment explanation
Indices: 57229--57343 Score: 126
Period size: 28 Copynumber: 4.1 Consensus size: 28
57219 TTTGTGTAAG
*
57229 GGTTTAGTGTTTCAAATTTAAGGTTTCGAA
1 GGTTTAGGGTTTCAAATTTAAGGTTT--AA
* *
57259 --TTAAGGATTTCAAAGTTTAAGGTTTAA
1 GGTTTAGGGTTTCAAA-TTTAAGGTTTAA
* ** *
57286 TGTTTAGGGTTTTGAATTTAAGGTTTAG
1 GGTTTAGGGTTTCAAATTTAAGGTTTAA
57314 GGTTTAGGGTTTCAAATTTAAGGTTTAA
1 GGTTTAGGGTTTCAAATTTAAGGTTTAA
57342 GG
1 GG
57344 GTTATAAGTA
Statistics
Matches: 70, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
27 2 0.03
28 48 0.69
29 20 0.29
ACGTcount: A:0.28, C:0.03, G:0.25, T:0.43
Consensus pattern (28 bp):
GGTTTAGGGTTTCAAATTTAAGGTTTAA
Found at i:57403 original size:12 final size:10
Alignment explanation
Indices: 57372--57399 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
57362 TAATAAATGA
57372 TCAAATATGT
1 TCAAATATGT
57382 TCAAATATGT
1 TCAAATATGT
57392 TCAAATAT
1 TCAAATAT
57400 ATGTGCAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.39
Consensus pattern (10 bp):
TCAAATATGT
Found at i:57611 original size:21 final size:21
Alignment explanation
Indices: 57585--57630 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
57575 TAAGGTCCAT
*
57585 TTGCCCCGGAGGAGTAGAGAA
1 TTGCCCAGGAGGAGTAGAGAA
*
57606 TTGCCCAGGAGGAGTAGAGTA
1 TTGCCCAGGAGGAGTAGAGAA
57627 TTGC
1 TTGC
57631 AATGGCTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.17, G:0.37, T:0.20
Consensus pattern (21 bp):
TTGCCCAGGAGGAGTAGAGAA
Found at i:60367 original size:19 final size:21
Alignment explanation
Indices: 60343--60398 Score: 68
Period size: 19 Copynumber: 2.9 Consensus size: 21
60333 CAAATTATTG
*
60343 TCTTTCTCTC-CTTT-TTTCT
1 TCTTTCTCTCTCTTTCTTCCT
60362 TCTTTC-CTCTCTTTCTTCCT
1 TCTTTCTCTCTCTTTCTTCCT
60382 TCTTTCT-T-TCTTTCTTC
1 TCTTTCTCTCTCTTTCTTC
60399 TCTGGTGCCG
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 3 0.09
19 19 0.58
20 11 0.33
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (21 bp):
TCTTTCTCTCTCTTTCTTCCT
Found at i:60392 original size:28 final size:28
Alignment explanation
Indices: 60343--60401 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
60333 CAAATTATTG
*
60343 TCTTTCTCTCCTTTTTTCTTCTTTCCTC
1 TCTTTCTCTCCTTCTTTCTTCTTTCCTC
*
60371 TCTTTCT-TCCTTCTTTCTTTCTTTCTTC
1 TCTTTCTCTCCTTCTTTC-TTCTTTCCTC
60399 TCT
1 TCT
60402 GGTGCCGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 9 0.32
28 19 0.68
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (28 bp):
TCTTTCTCTCCTTCTTTCTTCTTTCCTC
Found at i:60399 original size:15 final size:15
Alignment explanation
Indices: 60343--60398 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 15
60333 CAAATTATTG
*
60343 TCTTTCTCTCCTTTTT
1 TCTTTCT-TCCTTCTT
60359 TC-TTCTTTCCTCTCTT
1 TCTTTC-TTCCT-TCTT
* *
60375 TCTTCCTTCTTTCTT
1 TCTTTCTTCCTTCTT
60390 TCTTTCTTC
1 TCTTTCTTC
60399 TCTGGTGCCG
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
15 19 0.58
16 12 0.36
17 2 0.06
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (15 bp):
TCTTTCTTCCTTCTT
Found at i:60944 original size:138 final size:139
Alignment explanation
Indices: 60713--61122 Score: 495
Period size: 143 Copynumber: 2.9 Consensus size: 139
60703 TGTCGTCAAA
* * *
60713 GGACTTCACCTCAAAATTCGAGTTTCAAAATTTAAAAATGGAATTGAAAAAATCATAAGACACAA
1 GGACTTCGCCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTGAAAAAATCATAAGACACAA
* *
60778 GAACTTCACTATGCATCACATGGTAAATTTCCATTTTAACCTTTTAAAAATTTATACTTTATCTT
66 GAACTTCACTATGCATCACATGGTAAATTTCCATTTTAACCTTTTAAAAGTTTATATTTTATCTT
*
60843 AAATT-T-T
131 AAATTCTAC
* * *
60850 GTACTTCGCCTCAAAATTCGAGTTTCAATTTTTAAAAATGAAATTGTAAAAAGTCATAAGACACA
1 GGACTTCGCCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTG-AAAAAATCATAAGACACA
* * * * * *
60915 AGAACTTCGCTATGCATCATATGGAAAATTTCTATTTGAAACTCTTT-AAAGTTTATATTTTATC
65 AGAACTTCACTATGCATCACATGGTAAATTTCCATTTTAACCT-TTTAAAAGTTTATATTTTATC
**
60979 TTTGATTCCATAAC
129 TTAAATT-C-T-AC
* * * * *
60993 GGATTTTGCCTCAAAATTCGAGTTTGAATATTTAAAAGTAAAATTGAAACAAATCATAAGACACA
1 GGACTTCGCCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTGAAA-AAATCATAAGACACA
* * * * *
61058 ATAACTTTACTATACATCACATGGTAAATTTTCA-TTTAACCTCTTAAAAGTTTATATTTTATCT
65 AGAACTTCACTATGCATCACATGGTAAATTTCCATTTTAACCTTTTAAAAGTTTATATTTTATCT
61122 T
130 T
61123 TTATTCGTAT
Statistics
Matches: 228, Mismatches: 36, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
137 41 0.18
138 74 0.32
139 3 0.01
141 3 0.01
142 28 0.12
143 79 0.35
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.37
Consensus pattern (139 bp):
GGACTTCGCCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTGAAAAAATCATAAGACACAA
GAACTTCACTATGCATCACATGGTAAATTTCCATTTTAACCTTTTAAAAGTTTATATTTTATCTT
AAATTCTAC
Found at i:70233 original size:19 final size:19
Alignment explanation
Indices: 70209--70247 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
70199 TTAGTAAAAT
*
70209 AAAATAATATTAATAATAA
1 AAAATAATAATAATAATAA
*
70228 AAAATAATAATGATAATAA
1 AAAATAATAATAATAATAA
70247 A
1 A
70248 TCGTTGGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (19 bp):
AAAATAATAATAATAATAA
Found at i:70236 original size:22 final size:22
Alignment explanation
Indices: 70203--70246 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
70193 CGGTTCTTAG
70203 TAAAATAAAATAAT-ATTAATAA
1 TAAAATAAAATAATGA-TAATAA
70225 TAAAA-AATAATAATGATAATAA
1 TAAAATAA-AATAATGATAATAA
70247 ATCGTTGGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 2 0.10
22 17 0.85
23 1 0.05
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (22 bp):
TAAAATAAAATAATGATAATAA
Found at i:70238 original size:16 final size:16
Alignment explanation
Indices: 70206--70248 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
70196 TTCTTAGTAA
*
70206 AATAAAATAATATTAAT
1 AATAAAA-AATAATAAT
70223 AATAAAAAATAATAAT
1 AATAAAAAATAATAAT
* *
70239 GATAATAAAT
1 AATAAAAAAT
70249 CGTTGGTAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 16 0.70
17 7 0.30
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (16 bp):
AATAAAAAATAATAAT
Found at i:70531 original size:17 final size:16
Alignment explanation
Indices: 70511--70569 Score: 73
Period size: 17 Copynumber: 3.5 Consensus size: 16
70501 ATTTGTTTAA
70511 AAATTTAATTTAATTTT
1 AAATTTAATTT-ATTTT
70528 AAATTTAAATTTATTTT
1 AAATTT-AATTTATTTT
* *
70545 AAATTTAAAATTATTAT
1 AAATTT-AATTTATTTT
70562 AAATTTAA
1 AAATTTAA
70570 AATAAATAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
16 2 0.05
17 32 0.82
18 5 0.13
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AAATTTAATTTATTTT
Found at i:70534 original size:6 final size:6
Alignment explanation
Indices: 70511--70570 Score: 56
Period size: 6 Copynumber: 10.5 Consensus size: 6
70501 ATTTGTTTAA
* * *
70511 AAATTT -AATTT AATTTT AAATTT AAATTT -ATTTT AAATTT AAAATT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
70557 --ATTAT AAATTT AAA
1 AAATT-T AAATTT AAA
70571 ATAAATAAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
4 2 0.05
5 10 0.23
6 28 0.65
7 3 0.07
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
AAATTT
Found at i:70570 original size:17 final size:17
Alignment explanation
Indices: 70527--70572 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
70517 AATTTAATTT
* *
70527 TAAATTTAAATTTATTT
1 TAAATTTAAAATTATTA
70544 TAAATTTAAAATTATTA
1 TAAATTTAAAATTATTA
70561 TAAATTTAAAAT
1 TAAATTTAAAAT
70573 AAATAAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TAAATTTAAAATTATTA
Found at i:71209 original size:9 final size:9
Alignment explanation
Indices: 71192--71238 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
71182 ATAAATGTGC
71192 TATTAATAA
1 TATTAATAA
*
71201 TATTTATAA
1 TATTAATAA
*
71210 TAATAATAA
1 TATTAATAA
*
71219 TATTATTGAA
1 TATTAAT-AA
71229 -ATTAATAA
1 TATTAATAA
71237 TA
1 TA
71239 ATACATAGCT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
8 2 0.07
9 26 0.87
10 2 0.07
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (9 bp):
TATTAATAA
Found at i:71219 original size:21 final size:21
Alignment explanation
Indices: 71195--71241 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
71185 AATGTGCTAT
*
71195 TAATAATATTTATAA-TAATAA
1 TAATAATATTGA-AATTAATAA
*
71216 TAATATTATTGAAATTAATAA
1 TAATAATATTGAAATTAATAA
71237 TAATA
1 TAATA
71242 CATAGCTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
TAATAATATTGAAATTAATAA
Found at i:72336 original size:30 final size:29
Alignment explanation
Indices: 72302--72431 Score: 149
Period size: 30 Copynumber: 4.4 Consensus size: 29
72292 TTCACCCTCG
*
72302 AACTTTCAAAAATCCCATTTTTAACCCTGA
1 AACTTCCAAAAATCCCATTTTTAACCC-GA
*
72332 AACTTCCAAAAATCCAATTTTTAACCCCGA
1 AACTTCCAAAAATCCCATTTTTAA-CCCGA
* * * *
72362 AACTT-CATAAAATTCC-GTTTTCACTCG-
1 AACTTCCA-AAAATCCCATTTTTAACCCGA
72389 AACTTCCAAAAATCCCATTTTTAATCCCGA
1 AACTTCCAAAAATCCCATTTTTAA-CCCGA
72419 AACTTCCAAAAAT
1 AACTTCCAAAAAT
72432 TTCGTTTTCA
Statistics
Matches: 83, Mismatches: 11, Indels: 12
0.78 0.10 0.11
Matches are distributed among these distances:
27 12 0.14
28 10 0.12
29 10 0.12
30 48 0.58
31 3 0.04
ACGTcount: A:0.38, C:0.28, G:0.04, T:0.31
Consensus pattern (29 bp):
AACTTCCAAAAATCCCATTTTTAACCCGA
Found at i:72398 original size:57 final size:57
Alignment explanation
Indices: 72332--72590 Score: 179
Period size: 59 Copynumber: 4.5 Consensus size: 57
72322 TTAACCCTGA
72332 AACTTCCAAAAATCCAATTTTTAACCCCGAAACTT-CATAAAATTCCGTTTTCACTCG
1 AACTTCCAAAAATCCAATTTTTAACCCCGAAACTTCCA-AAAATTCCGTTTTCACTCG
* * * *
72389 AACTTCCAAAAATCCCATTTTTAATCCCGAAACTTCCAAAAATTTCGTTTTCACCCCTG
1 AACTTCCAAAAATCCAATTTTTAACCCCGAAACTTCCAAAAATTCCGTTTTCA-CTC-G
** * ** ** * ** *
72448 AAAGTCCAAAAACTCC-ATTCTCGACATCAAAAC-TCTTAAAATTACCCTTTT-ACCTCCG
1 AACTTCCAAAAA-TCCAATTTTTAACCCCGAAACTTCCAAAAATT-CCGTTTTCA-CT-CG
* * * * *
72506 AACTTCCAAAAATTCC-ATTTTTGACACCAAAACTTCCAAAAATTACCATTTTGCCCTCG
1 AACTTCCAAAAA-TCCAATTTTTAACCCCGAAACTTCCAAAAATT-CCGTTTT-CACTCG
* *
72565 AACGTCCAAAAACTCC-ATTTTCAACC
1 AACTTCCAAAAA-TCCAATTTTTAACC
72591 TCAAAACTCT
Statistics
Matches: 160, Mismatches: 33, Indels: 16
0.77 0.16 0.08
Matches are distributed among these distances:
57 47 0.29
58 43 0.27
59 65 0.41
60 5 0.03
ACGTcount: A:0.35, C:0.30, G:0.05, T:0.30
Consensus pattern (57 bp):
AACTTCCAAAAATCCAATTTTTAACCCCGAAACTTCCAAAAATTCCGTTTTCACTCG
Found at i:72481 original size:59 final size:59
Alignment explanation
Indices: 72418--72643 Score: 203
Period size: 58 Copynumber: 3.9 Consensus size: 59
72408 TTTAATCCCG
* * * *
72418 AAACTTCCAAAAATT-TCGTTTTCACCCCTGAAAGTCCAAAAACTCCATTCTCGACATCA
1 AAACTTCCAAAAATTACCATTTT-ACCCCTGAACGTCCAAAAACTCCATTTTCGACATCA
** * * * * *
72477 AAAC-TCTTAAAATTACCCTTTTACCTCC-GAACTTCCAAAAATTCCATTTTTGACACCA
1 AAACTTCCAAAAATTACCATTTTACC-CCTGAACGTCCAAAAACTCCATTTTCGACATCA
* * *
72535 AAACTTCCAAAAATTACCATTTT-GCCCTCGAACGTCCAAAAACTCCATTTTCAACCTCA
1 AAACTTCCAAAAATTACCATTTTACCCCT-GAACGTCCAAAAACTCCATTTTCGACATCA
* * * * *
72594 AAAC-TCTC-AAAATTACCCTTTTACCCCCGAATGTCTAAAAATTCCATTTT
1 AAACTTC-CAAAAATTACCATTTTACCCCTGAACGTCCAAAAACTCCATTTT
72644 TAACCCTAAA
Statistics
Matches: 134, Mismatches: 26, Indels: 15
0.77 0.15 0.09
Matches are distributed among these distances:
57 2 0.01
58 74 0.55
59 58 0.43
ACGTcount: A:0.35, C:0.30, G:0.05, T:0.30
Consensus pattern (59 bp):
AAACTTCCAAAAATTACCATTTTACCCCTGAACGTCCAAAAACTCCATTTTCGACATCA
Found at i:72508 original size:117 final size:117
Alignment explanation
Indices: 72387--72673 Score: 350
Period size: 117 Copynumber: 2.5 Consensus size: 117
72377 CGTTTTCACT
* * * *
72387 CGAACTTCCAAAAATCCCATTTTTAATC-CCGAAACTTCCAAAAATT-TCGTTTTCACCC-CTGA
1 CGAACTTCCAAAAATTCCATTTTTAA-CACCAAAACTTCCAAAAATTACCATTTTC-CCCTC-GA
* * *
72449 AAGTCCAAAAACTCCATTCTCGACATCAAAACTCTTAAAATTACCCTTTTACCTC
63 AAGTCCAAAAACTCCATTCTCAACATCAAAACTCTCAAAATTACCCTTTTACCCC
* * *
72504 CGAACTTCCAAAAATTCCATTTTTGACACCAAAACTTCCAAAAATTACCATTTTGCCCTCGAACG
1 CGAACTTCCAAAAATTCCATTTTTAACACCAAAACTTCCAAAAATTACCATTTTCCCCTCGAAAG
* *
72569 TCCAAAAACTCCATTTTCAACCTCAAAACTCTCAAAATTACCCTTTTACCCC
66 TCCAAAAACTCCATTCTCAACATCAAAACTCTCAAAATTACCCTTTTACCCC
* ** *
72621 CGAA-TGTCTAAAAATTCCATTTTTAAC-CCTAAATTTTCCCAAAATTACCATTT
1 CGAACT-TCCAAAAATTCCATTTTTAACACC-AAAACTTCCAAAAATTACCATTT
72674 CACCATCGAG
Statistics
Matches: 148, Mismatches: 17, Indels: 10
0.85 0.10 0.06
Matches are distributed among these distances:
116 4 0.03
117 138 0.93
118 6 0.04
ACGTcount: A:0.35, C:0.30, G:0.05, T:0.31
Consensus pattern (117 bp):
CGAACTTCCAAAAATTCCATTTTTAACACCAAAACTTCCAAAAATTACCATTTTCCCCTCGAAAG
TCCAAAAACTCCATTCTCAACATCAAAACTCTCAAAATTACCCTTTTACCCC
Found at i:72523 original size:58 final size:57
Alignment explanation
Indices: 72452--72643 Score: 206
Period size: 58 Copynumber: 3.3 Consensus size: 57
72442 CCCCTGAAAG
* *
72452 TCCAAAAACTCCATTCTCGACATCAAAACTCTTAAAATTACCCTTTTACCTCCGAACT
1 TCCAAAAACTCCATTTTCGACATCAAAACTCTAAAAATTACCCTTTTACC-CCGAACT
* * * * * * *
72510 TCCAAAAATTCCATTTTTGACACCAAAACTTCCAAAAATTACCATTTTGCCCTCGAACG
1 TCCAAAAACTCCATTTTCGACATCAAAAC-TCTAAAAATTACCCTTTTACCC-CGAACT
* * *
72569 TCCAAAAACTCCATTTTCAACCTCAAAACTCTCAAAATTACCCTTTTACCCCCGAA-T
1 TCCAAAAACTCCATTTTCGACATCAAAACTCTAAAAATTACCCTTTTA-CCCCGAACT
* *
72626 GTCTAAAAATTCCATTTT
1 -TCCAAAAACTCCATTTT
72644 TAACCCTAAA
Statistics
Matches: 109, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
58 60 0.55
59 49 0.45
ACGTcount: A:0.35, C:0.31, G:0.04, T:0.30
Consensus pattern (57 bp):
TCCAAAAACTCCATTTTCGACATCAAAACTCTAAAAATTACCCTTTTACCCCGAACT
Found at i:81568 original size:151 final size:151
Alignment explanation
Indices: 81329--81605 Score: 484
Period size: 151 Copynumber: 1.8 Consensus size: 151
81319 GCTCAAAGTG
* * *
81329 AACAAATCTTCGAACTCTAGCTTCCTGATGAGACAATGAGAAGAAGGGCGAAGCAATAAAGGGTT
1 AACAAATCTTCAAACTCCAGCTTCCAGATGAGACAATGAGAAGAAGGGCGAAGCAATAAAGGGTT
* *
81394 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTTATGAGATACAGAGAAACAA
66 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGATACAGAGAAACAA
81459 ATCAAGCCCACGCTCGATGTA
131 ATCAAGCCCACGCTCGATGTA
*
81480 AACAAATCTTCAAACTCCAGCTTCCAGATGAGACATTGAGAAGCAA-GGCGAAGCAATAAAGGGT
1 AACAAATCTTCAAACTCCAGCTTCCAGATGAGACAATGAGAAG-AAGGGCGAAGCAATAAAGGGT
81544 TAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGATACAGAGAA
65 TAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGATACAGAGAA
81606 GCGAATTGAA
Statistics
Matches: 119, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
151 117 0.98
152 2 0.02
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.22
Consensus pattern (151 bp):
AACAAATCTTCAAACTCCAGCTTCCAGATGAGACAATGAGAAGAAGGGCGAAGCAATAAAGGGTT
AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGATACAGAGAAACAA
ATCAAGCCCACGCTCGATGTA
Found at i:81717 original size:205 final size:205
Alignment explanation
Indices: 81456--82079 Score: 825
Period size: 205 Copynumber: 3.0 Consensus size: 205
81446 TACAGAGAAA
* * * * * * * * *
81456 CAAATCAAGCCCACGCTCGATGTAAACAAATCTTCAAACTCCAGCTTCCAGATGAGACATTGAGA
1 CAAATCAAACTCACGCCCGATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGA
*
81521 AGCAAGGCGAAGCAATAAAGGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCT
66 AGCAAGGCGAAGCAATAAAGGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCT
*
81586 TCCTGATGAGATACAGAGAAGCGAATTGAAACAAACGACGCAGTCATCTTCCTGATGAGATATTG
131 TCCTGATGAGATACAGAGAAGTGAATTGAAACAAACGACGCAGTCATCTTCCTGATGAGATATTG
*
81651 AGAAGAAGAG
196 AGAAGAAGAC
* * *
81661 CAAATCAAACTCACGCCCGATGTGAGCAAATCTTCGAACCCCAACTTCCTGATGAGATACGGAGA
1 CAAATCAAACTCACGCCCGATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGA
* * * *
81726 AGCAGGGCGAAGCAATAAAGGGTTAGTTTCCTAATGAGATATTGAGAAGTGGACCAAATTCGTCT
66 AGCAAGGCGAAGCAATAAAGGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCT
* *
81791 TCCTGATGAGATACAGAGAAGTGAATTGAAACAAACAACACAGTCATCTTCCTGATGAGATATTG
131 TCCTGATGAGATACAGAGAAGTGAATTGAAACAAACGACGCAGTCATCTTCCTGATGAGATATTG
81856 AGAAGAAGAC
196 AGAAGAAGAC
* * * *
81866 CAAATCAAACTCATGCCCGATGTGAGCAAATCTTTGAACCACAGCTTTCTGATGAGACACTGAGA
1 CAAATCAAACTCACGCCCGATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGA
* * * * * * *
81931 AGCAAGTCGAAGCACTAAAGTGGTTAGCTCCCTGATGAGATACGGAGAGGTGAACCAAATCCGTC
66 AGCAAGGCGAAGCAATAAAG-GGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTC
* * * * ** ** * * * *
81996 TTCCTGATGAAACACAGAGAAATGGATCAAAACAAGTGATGCGGCCATCTTCCTGATGAGATACT
130 TTCCTGATGAGATACAGAGAAGTGAATTGAAACAAACGACGCAGTCATCTTCCTGATGAGATATT
*
82061 GAGAAGAAGGC
195 GAGAAGAAGAC
*
82072 CAAGTCAA
1 CAAATCAA
82080 TGAAACTAGA
Statistics
Matches: 363, Mismatches: 55, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
205 259 0.71
206 104 0.29
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (205 bp):
CAAATCAAACTCACGCCCGATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGA
AGCAAGGCGAAGCAATAAAGGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCT
TCCTGATGAGATACAGAGAAGTGAATTGAAACAAACGACGCAGTCATCTTCCTGATGAGATATTG
AGAAGAAGAC
Found at i:82459 original size:13 final size:13
Alignment explanation
Indices: 82441--82489 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
82431 AATTTGTTTA
82441 AAATTTTAATTTT
1 AAATTTTAATTTT
*
82454 AAATTTTAAATTT
1 AAATTTTAATTTT
*
82467 AAA-TTTAA-TTC
1 AAATTTTAATTTT
*
82478 AAGTTTTAATTT
1 AAATTTTAATTT
82490 ATTTTCAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
11 4 0.13
12 10 0.32
13 17 0.55
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (13 bp):
AAATTTTAATTTT
Found at i:82460 original size:7 final size:7
Alignment explanation
Indices: 82441--82472 Score: 50
Period size: 6 Copynumber: 4.9 Consensus size: 7
82431 AATTTGTTTA
82441 AAATTTT
1 AAATTTT
82448 -AATTTT
1 AAATTTT
82454 AAATTTT
1 AAATTTT
82461 AAA-TTT
1 AAATTTT
82467 AAATTT
1 AAATTT
82473 AATTCAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
6 12 0.52
7 11 0.48
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AAATTTT
Found at i:82509 original size:18 final size:17
Alignment explanation
Indices: 82456--82523 Score: 64
Period size: 17 Copynumber: 3.9 Consensus size: 17
82446 TTAATTTTAA
*
82456 ATTTTAAATTTAAATTT
1 ATTTTAAATTTAAAATT
* * * * *
82473 AATTCAAGTTTTAATTT
1 ATTTTAAATTTAAAATT
82490 ATTTTCAAATTTAAAATT
1 ATTTT-AAATTTAAAATT
*
82508 ATTATAAATTTAAAAT
1 ATTTTAAATTTAAAAT
82524 AAATAAAGTT
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
17 27 0.68
18 13 0.32
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.51
Consensus pattern (17 bp):
ATTTTAAATTTAAAATT
Found at i:83165 original size:15 final size:15
Alignment explanation
Indices: 83147--83186 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
83137 AATGTGCTAT
83147 TAATAATATTTATAA
1 TAATAATATTTATAA
83162 TAATAATATTTATAA
1 TAATAATATTTATAA
83177 TAATAATATT
1 TAATAATATT
83187 ATTATTGACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATAATATTTATAA
Found at i:83168 original size:18 final size:16
Alignment explanation
Indices: 83147--83191 Score: 67
Period size: 15 Copynumber: 2.9 Consensus size: 16
83137 AATGTGCTAT
83147 TAATAATA-TTTATAA
1 TAATAATATTTTATAA
83162 TAATAATA-TTTATAA
1 TAATAATATTTTATAA
83177 TAATAATATTATTAT
1 TAATAATATT-TTAT
83192 TGACATTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 23 0.82
16 1 0.04
17 4 0.14
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TAATAATATTTTATAA
Found at i:83184 original size:21 final size:21
Alignment explanation
Indices: 83158--83208 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
83148 AATAATATTT
* *
83158 ATAATAATAATATTTATAATA
1 ATAATAATAATATTGACAATA
* * *
83179 ATAATATTATTATTGACATTA
1 ATAATAATAATATTGACAATA
83200 ATAATAATA
1 ATAATAATA
83209 CATAGCTTTC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
ATAATAATAATATTGACAATA
Found at i:84338 original size:30 final size:30
Alignment explanation
Indices: 84297--84463 Score: 216
Period size: 30 Copynumber: 5.6 Consensus size: 30
84287 ACCCTTTCAC
84297 CCCCG-AACTTCCAAAAATCCCATTTTTGA
1 CCCCGAAACTTCCAAAAATCCCATTTTTGA
*
84326 CCTCGAAACTTCCAAAAATCCCATTTTTGA
1 CCCCGAAACTTCCAAAAATCCCATTTTTGA
* *
84356 CCCCAAAACTTCCAAAAATCCCA-TTTTCA
1 CCCCGAAACTTCCAAAAATCCCATTTTTGA
* *
84385 CCCCTG-AACTTCCAAAAATCTCA-TTTTCA
1 CCCC-GAAACTTCCAAAAATCCCATTTTTGA
* *
84414 CCCCCGAATCTTCCAAAAATCTCATTTTTGA
1 -CCCCGAAACTTCCAAAAATCCCATTTTTGA
*
84445 TCCCGAAACTTCCAAAAAT
1 CCCCGAAACTTCCAAAAAT
84464 TCCGTTTTCA
Statistics
Matches: 123, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
29 36 0.29
30 82 0.67
31 5 0.04
ACGTcount: A:0.34, C:0.34, G:0.05, T:0.28
Consensus pattern (30 bp):
CCCCGAAACTTCCAAAAATCCCATTTTTGA
Found at i:84432 original size:89 final size:89
Alignment explanation
Indices: 84291--84491 Score: 269
Period size: 89 Copynumber: 2.3 Consensus size: 89
84281 AAAATTACCC
* *
84291 TTTCACCCCCGAACTTCCAAAAATCCCATTTTTGACCTCGAAACTTCCAAAAATCCCATTTTTGA
1 TTTCACCCCCGAACTTCCAAAAATCCCATTTTTCACCCCGAAACTTCCAAAAATCCCATTTTTGA
84356 CCCCAAAACTTCCAAAAATCCCAT
66 CCCCAAAACTTCCAAAAATCCCAT
* * * *
84380 TTTCACCCCTGAACTTCCAAAAATCTCA-TTTTCACCCCCGAATCTTCCAAAAATCTCATTTTTG
1 TTTCACCCCCGAACTTCCAAAAATCCCATTTTTCA-CCCCGAAACTTCCAAAAATCCCATTTTTG
* * * *
84444 ATCCCGAAACTTCCAAAAATTCCGT
65 ACCCCAAAACTTCCAAAAATCCCAT
* * *
84469 TTTCACCCTCGAGCATCCAAAAA
1 TTTCACCCCCGAACTTCCAAAAA
84492 CTCCATTCTC
Statistics
Matches: 97, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
88 5 0.05
89 92 0.95
ACGTcount: A:0.32, C:0.34, G:0.05, T:0.28
Consensus pattern (89 bp):
TTTCACCCCCGAACTTCCAAAAATCCCATTTTTCACCCCGAAACTTCCAAAAATCCCATTTTTGA
CCCCAAAACTTCCAAAAATCCCAT
Found at i:84472 original size:60 final size:58
Alignment explanation
Indices: 84291--84491 Score: 228
Period size: 60 Copynumber: 3.4 Consensus size: 58
84281 AAAATTACCC
*
84291 TTTCACCCCCGAACTTCCAAAAATCCCATTTTTGACCTCGAAACTTCCAAAAATCCCATT
1 TTTCACCCCCGAACTTCCAAAAATCCCATTTTTGACC-CGAAACTTCCAAAAATTCCA-T
* ** *
84351 TTTGACCCCAAAACTTCCAAAAATCCCA-TTTTCACCCCTG-AACTTCCAAAAA-TCTCAT
1 TTTCACCCCCGAACTTCCAAAAATCCCATTTTTGA-CCC-GAAACTTCCAAAAATTC-CAT
* *
84409 TTTCACCCCCGAATCTTCCAAAAATCTCATTTTTGATCCCGAAACTTCCAAAAATTCCGT
1 TTTCACCCCCGAA-CTTCCAAAAATCCCATTTTTGA-CCCGAAACTTCCAAAAATTCCAT
* * *
84469 TTTCACCCTCGAGCATCCAAAAA
1 TTTCACCCCCGAACTTCCAAAAA
84492 CTCCATTCTC
Statistics
Matches: 119, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
58 12 0.10
59 44 0.37
60 61 0.51
61 2 0.02
ACGTcount: A:0.32, C:0.34, G:0.05, T:0.28
Consensus pattern (58 bp):
TTTCACCCCCGAACTTCCAAAAATCCCATTTTTGACCCGAAACTTCCAAAAATTCCAT
Found at i:84713 original size:28 final size:28
Alignment explanation
Indices: 84682--84735 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
84672 TTTTCCCAAA
84682 ACCATTTCACCCCCGAGAATCCGAAATT
1 ACCATTTCACCCCCGAGAATCCGAAATT
* * *
84710 ACCATTTTACCCTCGAGTATCCGAAA
1 ACCATTTCACCCCCGAGAATCCGAAA
84736 AGTATCATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.31, C:0.33, G:0.11, T:0.24
Consensus pattern (28 bp):
ACCATTTCACCCCCGAGAATCCGAAATT
Found at i:87467 original size:30 final size:30
Alignment explanation
Indices: 87397--87534 Score: 115
Period size: 30 Copynumber: 4.7 Consensus size: 30
87387 AATTTCAAAT
* *
87397 TTTTAC-AAATGTTTG-GGGCATTATTATAG
1 TTTTACTAAA-GTTTGAGGGCTTTATTATAA
* * *
87426 TTTTTCCAAAGTTTGAGGGCTTTATTGTAA
1 TTTTACTAAAGTTTGAGGGCTTTATTATAA
** ** *
87456 TTTTACTAAAGTTTGAGGGAGTTGCTATTA
1 TTTTACTAAAGTTTGAGGGCTTTATTATAA
*
87486 TTTTACTAAAG-TTGAGGG-TGTTATTACAA
1 TTTTACTAAAGTTTGAGGGCT-TTATTATAA
*
87515 TTTAACTAAAG-TTGAGGGCT
1 TTTTACTAAAGTTTGAGGGCT
87535 AATGGGAAAA
Statistics
Matches: 87, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
29 39 0.45
30 48 0.55
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.43
Consensus pattern (30 bp):
TTTTACTAAAGTTTGAGGGCTTTATTATAA
Found at i:87517 original size:29 final size:29
Alignment explanation
Indices: 87454--87532 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 29
87444 GCTTTATTGT
* *
87454 AATTTTACTAAAGTTTGAGGGAGTTGCTAT
1 AATTTTACTAAAG-TTGAGGGAGTTACTAC
* * *
87484 TATTTTACTAAAGTTGAGGGTGTTATTAC
1 AATTTTACTAAAGTTGAGGGAGTTACTAC
*
87513 AATTTAACTAAAGTTGAGGG
1 AATTTTACTAAAGTTGAGGG
87533 CTAATGGGAA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 30 0.71
30 12 0.29
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.39
Consensus pattern (29 bp):
AATTTTACTAAAGTTGAGGGAGTTACTAC
Found at i:88121 original size:141 final size:138
Alignment explanation
Indices: 87860--88462 Score: 552
Period size: 142 Copynumber: 4.4 Consensus size: 138
87850 GGGATATTAT
* * *
87860 ACTTCACCTCAAAATTCGAGTTTCAATATTTAAAAAT-AAATTGAAATAAATC----ATAGAAGA
1 ACTTCACCTCAAAATTCAAGTTTCAATATTTAAAAATGAAATTGAAA-AAATCAAAAACACAAGA
* *
87920 ACTTCACTATGAATCACATGGTAAATTTCCATTTTAAACACTTAAAAACTTT-TACTTTATCTTT
65 ACTTCACTATGCATCACATGGTAAATTTCCATTTTAAACTCTTAAAAA-TTTATACTTTATCTTT
87984 CTTTTGTAACAG
129 -TTTTGTAAC-G
* * * * *
87996 ACTTCACCTCAAAATTCAAGTTTTAATATTTAAAGATGAAATTGAAAAAATCATAAAATATAAAA
1 ACTTCACCTCAAAATTCAAGTTTCAATATTTAAAAATGAAATTGAAAAAATCA-AAAACACAAGA
* * *
88061 ACTTCACTATGCATCACATGGTAAATTTCTATTTTAACCTCTTAAAAATTTATACATTATCTTAA
65 ACTTCACTATGCATCACATGGTAAATTTCCATTTTAAACTCTTAAAAATTTATACTTTATCTT--
* *
88126 ATTATGTAACAG
128 TTTTTGTAAC-G
* * * * * * *
88138 CCTTCATCTCAAAACTCTAGTTTCAATGTTTAAAAATTAAATTGTAAAAAATCAAAAGCACAAGA
1 ACTTCACCTCAAAATTCAAGTTTCAATATTTAAAAATGAAATTG-AAAAAATCAAAAACACAAGA
* * * ** * *
88203 ACCT-AGCTATGCAACATATTATTAAATTTCCATTTCAAACTCTTAAAAA-TTATATTTTATCTT
65 ACTTCA-CTATGCATCACA-TGGTAAATTTCCATTTTAAACTCTTAAAAATTTATACTTTATCTT
88266 TTATTTCGTAACG
128 TT-TTT-GTAACG
* * * * * *
88279 TATTTCGCGTCAAAATTCAAGTTTGAATATTTAAAAATGAAATTAAAAAAATCATAAGACACAAG
1 -ACTTCACCTCAAAATTCAAGTTTCAATATTTAAAAATGAAATTGAAAAAATCA-AAAACACAAG
* ** * *
88344 AAC-TCTTCTATGCATCACATGGTAAATTTTTATTTTAACCTCTTAAAAGTTTATACTTTATCTT
64 AACTTC-ACTATGCATCACATGGTAAATTTCCATTTTAAACTCTTAAAAATTTATACTTTATCTT
*
88408 TTATT-T---G
128 TTTTTGTAACG
* * *
88415 ACTTCACCAT-AAAATTCGAGTTTTAATATTTAAAAATAAAATT-AAAAA
1 ACTTCACC-TCAAAATTCAAGTTTCAATATTTAAAAATGAAATTGAAAAA
88463 GAAATCTTAA
Statistics
Matches: 380, Mismatches: 67, Indels: 42
0.78 0.14 0.09
Matches are distributed among these distances:
134 5 0.01
135 35 0.09
136 41 0.11
137 9 0.02
139 1 0.00
140 4 0.01
141 99 0.26
142 152 0.40
143 34 0.09
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (138 bp):
ACTTCACCTCAAAATTCAAGTTTCAATATTTAAAAATGAAATTGAAAAAATCAAAAACACAAGAA
CTTCACTATGCATCACATGGTAAATTTCCATTTTAAACTCTTAAAAATTTATACTTTATCTTTTT
TTGTAACG
Found at i:89386 original size:143 final size:143
Alignment explanation
Indices: 88761--89346 Score: 691
Period size: 143 Copynumber: 4.1 Consensus size: 143
88751 TGTAACAGAT
* *
88761 TTCGCCTGAAAATTCGAGTTTCAATATTTAAAAATGAATTTGAAAAAAATCATAAGACACAAGAA
1 TTCGCCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTG-AAAAAATCATAAGACACAAGAA
* * * * * * * * *
88826 CT-TCTCTATGAACCACATGGTTAATTTTCATTTTAACCACTTAAAAATATATACTTTCTCTTTG
65 CTCTCGCTATGCATCACATGGTAAATTTCCATTTTAACCACTTAAAAATTTATATTTTATCTTTA
*
88890 ATTCTATAATAGAC
130 ATTCCATAATAGAC
* * * *
88904 ATGGCCTCAAAATTCGAGCTTCAATATTTAAAAATGAAATTGAAAAAATTATAAGACACAAGAAC
1 TTCGCCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTGAAAAAATCATAAGACACAAGAAC
* * * * * *
88969 T-TCACTATGCATCCCATGGTAAATTTCCATTTTATCCACTTAAAAATTTATAATTTATATTAAA
66 TCTCGCTATGCATCACATGGTAAATTTCCATTTTAACCACTTAAAAATTTATATTTTATCTTTAA
** *
89033 TTTTATAA-CGAAC
131 TTCCATAATAG-AC
* * *
89046 TTCACCTCAAAATTTGAGTTTCAATATTTAAAAATGAAATTGTAAAAAATCATAAGACACAACAA
1 TTCGCCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTG-AAAAAATCATAAGACACAAGAA
* * * **
89111 -TTTCGCTATGCAACACATGGTAAATTTCCATTTTTAA-CTCTTAAAAATTTATATTGAATCTTT
65 CTCTCGCTATGCATCACATGGTAAATTTCCA-TTTTAACCACTTAAAAATTTATATTTTATCTTT
* ** *
89174 GATATCC-TAACGGAT
129 AAT-TCCATAATAGAC
* *
89189 TTCGCCTCAAAATTCGAGTTTGAATATTTAAAAATGAAATTGAAACAAATCATAAGATACAAGAA
1 TTCGCCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTGAAA-AAATCATAAGACACAAGAA
* * *
89254 CTCT-GCTATGCATCACATGGTAAATTTCCATTTTAACCTCATAAATATTTATATTTTATCTTTA
65 CTCTCGCTATGCATCACATGGTAAATTTCCATTTTAACCACTTAAAAATTTATATTTTATCTTTA
89318 ATTCCATAATAGAC
130 ATTCCATAATAGAC
89332 TTCGCCTCAAAATTC
1 TTCGCCTCAAAATTC
89347 ATGTTCTAAT
Statistics
Matches: 375, Mismatches: 58, Indels: 20
0.83 0.13 0.04
Matches are distributed among these distances:
141 1 0.00
142 132 0.35
143 233 0.62
144 9 0.02
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (143 bp):
TTCGCCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTGAAAAAATCATAAGACACAAGAAC
TCTCGCTATGCATCACATGGTAAATTTCCATTTTAACCACTTAAAAATTTATATTTTATCTTTAA
TTCCATAATAGAC
Found at i:90641 original size:30 final size:30
Alignment explanation
Indices: 90607--90663 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
90597 CATGGTCTGG
*
90607 CACATGGCCGTGT-TCCCAGCCCGTGTGGCT
1 CACATGGCCATGTGT-CCAGCCCGTGTGGCT
*
90637 CACATGGCCATGTGTCTAGCCCGTGTG
1 CACATGGCCATGTGTCCAGCCCGTGTG
90664 ACTCCTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.12, C:0.33, G:0.30, T:0.25
Consensus pattern (30 bp):
CACATGGCCATGTGTCCAGCCCGTGTGGCT
Found at i:91172 original size:143 final size:144
Alignment explanation
Indices: 90909--91586 Score: 699
Period size: 144 Copynumber: 4.7 Consensus size: 144
90899 TATCTATTTA
* * *
90909 TCTTTGATTCCGTAACGGACTTCACCTCAAAATTTGAGTTTCAACATTTAAAAATGAAATTGAAA
1 TCTTTGATTCTGTAACAGACTTCACCTCAAAATTTGAGTTTCAATATTTAAAAATGAAATTGAAA
* * * *
90974 AAAATCATAAGACACAAGAACTTCTCTATGAATCACATAGTAAATTTCCATTTTAACCACTTAAA
66 AAAATCATAAGACACAAGAACTTCGCTATGAATAACATGGTAAATTTCCATTTTAACCTCTTAAA
91039 AAATTTATACTTTC
131 AAATTTATACTTTC
* * * * *
91053 TTTTTGATTTTGTAACAGAGTTCACCTCAGAATTTGAGTTTCAATATTTAACAATGAAATT-AAA
1 TCTTTGATTCTGTAACAGACTTCACCTCAAAATTTGAGTTTCAATATTTAAAAATGAAATTGAAA
* *
91117 AAAATCTTAAGACACAGGAACTTCGCTATGAATAACATGGTAAATTTCCATTTTAACCTCTT--A
66 AAAATCATAAGACACAAGAACTTCGCTATGAATAACATGGTAAATTTCCATTTTAACCTCTTAAA
*
91180 AAATTTTTACTTTC
131 AAATTTATACTTTC
* * * *
91194 TCTTTGATTCTATAAAAGACTTCACCTCAAAATTCGAGTTTCAATATTTAAAAATAAAATTGAAA
1 TCTTTGATTCTGTAACAGACTTCACCTCAAAATTTGAGTTTCAATATTTAAAAATGAAATTGAAA
* ** * *
91259 AAACA-CATAAGACACAAGAACTTCGCTATGCATGTCATGGTAATTTTCCATTTTAAACTCTTAA
66 AAA-ATCATAAGACACAAGAACTTCGCTATGAATAACATGGTAAATTTCCATTTTAACCTCTTAA
* *
91323 AAAA-TTATATTTTA
130 AAAATTTATACTTTC
* * *** * * * *
91337 TCTTTGATTACT-TAACGGATTTTGTCTCAAAATTCGAGTTTGAATATTTAAAAATAAAAATGAA
1 TCTTTGATT-CTGTAACAGACTTCACCTCAAAATTTGAGTTTCAATATTTAAAAATGAAATTG-A
* * * * * * * * * *
91401 AAAAAATCTTAAAACAGAAGAAGTCCGCTATGCATCACACT-ATAAATCTCCATTTTAAGCTCTT
64 AAAAAATCATAAGACACAAGAACTTCGCTATGAATAACA-TGGTAAATTTCCATTTTAACCTCTT
* *
91465 -AAAAATGTATACTTTA
128 AAAAAATTTATACTTTC
** * ** * * *
91481 TCTTTGATTCAATAACAAACTTGGCATCAAAATTTGAGTTTTAATATTTAAAAATAAAATTGAAA
1 TCTTTGATTCTGTAACAGACTTCACCTCAAAATTTGAGTTTCAATATTTAAAAATGAAATTGAAA
* * * *
91546 AGATATCATAAAAACACATA-AACTTCGCTATGTATATCATG
66 A-AAATCAT-AAGACACA-AGAACTTCGCTATGAATAACATG
91587 AATCTGTTAA
Statistics
Matches: 447, Mismatches: 73, Indels: 27
0.82 0.13 0.05
Matches are distributed among these distances:
141 66 0.15
142 56 0.13
143 129 0.29
144 173 0.39
145 22 0.05
146 1 0.00
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.35
Consensus pattern (144 bp):
TCTTTGATTCTGTAACAGACTTCACCTCAAAATTTGAGTTTCAATATTTAAAAATGAAATTGAAA
AAAATCATAAGACACAAGAACTTCGCTATGAATAACATGGTAAATTTCCATTTTAACCTCTTAAA
AAATTTATACTTTC
Found at i:92260 original size:143 final size:142
Alignment explanation
Indices: 91793--92390 Score: 600
Period size: 143 Copynumber: 4.2 Consensus size: 142
91783 TTTATCATTT
* * * * * *
91793 ATTCAGTAATGGACTTCGCCTCAAAATTTGAGCTTT-AATATTTAAAAATGAATTTGAAAAAAAT
1 ATTCTGTAATAGACTTCACCTCAAAATTCGAG-TTTCAATATTTAAAAATGAAATTGTAAAAAAT
* * * * * * *
91857 CACAAGACACAATAACTTCTCTATGAATCACATGGTAAATTTCCATTTTACCCA-CTTAAAAATA
65 CATAAGACACAAGAATTTCGCTATGCATCACATGGTAAATTTCCATTTTA--AATCTTAAAAATT
* *
91921 TATACTTTCTCTTTG
128 TATACTTTATCTTAG
** * * *
91936 ATTCTGTAGCAGAC-TCGACCTCAAAATTGGAGTTCCAATATTTAAAAATGATATTG-AAAAAAT
1 ATTCTGTAATAGACTTC-ACCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTGTAAAAAAT
* * *
91999 CATAAGACACAAGAATTTCACTATGCATCGA-ATGGTAAATTTCCATTTTAACTTTTAAAAATTT
65 CATAAGACACAAGAATTTCGCTATGCATC-ACATGGTAAATTTCCATTTTAAATCTTAAAAATTT
*
92063 ATACTTTATCTTAA
129 ATACTTTATCTTAG
* * * * * *
92077 ATTTTGTAAAAGACTTCGCCTCAAAATTCGAGTTTCAATATTTAAATATTAAATTGTAAAATATC
1 ATTCTGTAATAGACTTCACCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTGTAAAAAATC
* * *
92142 ATAAGACACAACAATTTCGTTATGTATCACATGGTAAATTTCCATTTTTAAATCTTAAAAATTTA
66 ATAAGACACAAGAATTTCGCTATGCATCACATGGTAAATTTCCA-TTTTAAATCTTAAAAATTTA
92207 TA-TTTAATCTTAG
130 TACTTT-ATCTTAG
* * * * * *
92220 ATTCCT-TAATGGATTTCACCTCCAAATTCGAGTTTAAATATTTAAAGATGAAATTGTAAAATAT
1 ATT-CTGTAATAGACTTCACCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTGTAAAAAAT
* * * **
92284 CATAAGACACAAGAACTTT-GCTATGCATCACATGATAAATTTTCATTTTTAACTCTTAAAAAAC
65 CATAAGACACAAGAA-TTTCGCTATGCATCACATGGTAAATTTCCA-TTTTAAATCTTAAAAATT
* *
92348 TATATTTTATCTTTG
128 TATACTTTATCTTAG
* * * *
92363 ATTCTATAATAGATTTCTCCTAAAAATT
1 ATTCTGTAATAGACTTCACCTCAAAATT
92391 TGTGTAACGC
Statistics
Matches: 382, Mismatches: 60, Indels: 26
0.82 0.13 0.06
Matches are distributed among these distances:
141 65 0.17
142 106 0.28
143 204 0.53
144 7 0.02
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.37
Consensus pattern (142 bp):
ATTCTGTAATAGACTTCACCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTGTAAAAAATC
ATAAGACACAAGAATTTCGCTATGCATCACATGGTAAATTTCCATTTTAAATCTTAAAAATTTAT
ACTTTATCTTAG
Found at i:95287 original size:143 final size:140
Alignment explanation
Indices: 95005--95308 Score: 358
Period size: 143 Copynumber: 2.1 Consensus size: 140
94995 ATAATATCTA
*** * *
95005 TTTATCTTTGATTTCGTAATGGACTTCGCCTCAAAATTTAAATTTCGATATTAAAAATGAAATTG
1 TTTATCTTTGATTT-GTAACAAACTTCACCTCAAAATTTAAATTTCAATATTAAAAATGAAATTG
* * * *
95070 AAAAAATCATAAGACACAAGAACTTAGCTATGAATCACATGGTAAATTACAATTTTAACCACTTT
65 AAAAAATCATAAGACACAAGAACTTAGCAATGAATCACATAGTAAATTACAATTTTAAACACTTA
* *
95135 AATATTTATAC
130 AAAAATTATAC
* * *
95146 TTTATCTTTGATTCTGTAACAAACTTCACCTCAAATTTTGAGTTTCAATATTTAAAAATGAAATT
1 TTTATCTTTGATT-TGTAACAAACTTCACCTCAAAATTTAAATTTCAATA-TTAAAAATGAAATT
* * * * *
95211 GAAAAAATTCATAAGACACAAGAACTTCGCAATGCA-CAACATAGTAAATTTCCATTTTAAACTC
64 GAAAAAA-TCATAAGACACAAGAACTTAGCAATGAATC-ACATAGTAAATTACAATTTTAAACAC
*
95275 TTAAAAAATTATAT
127 TTAAAAAATTATAC
*
95289 TTTATGTTTGATTTTGTAAC
1 TTTATCTTTGA-TTTGTAAC
95309 GAATTGTAAC
Statistics
Matches: 137, Mismatches: 21, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
141 40 0.29
142 23 0.17
143 72 0.53
144 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (140 bp):
TTTATCTTTGATTTGTAACAAACTTCACCTCAAAATTTAAATTTCAATATTAAAAATGAAATTGA
AAAAATCATAAGACACAAGAACTTAGCAATGAATCACATAGTAAATTACAATTTTAAACACTTAA
AAAATTATAC
Found at i:96533 original size:72 final size:72
Alignment explanation
Indices: 96442--96575 Score: 196
Period size: 72 Copynumber: 1.9 Consensus size: 72
96432 CACATGCCCG
* * * *
96442 TGTGTCCCCTGTACTTTAATTCACAAAATAGTATGTACACACAGTCTGGCGCACACTCGTGTACC
1 TGTGTCCCATGTACATTAATTCACAAAATAGTATGCACACACAGTCTGGCACACACTCGTGTACC
96507 CAACCCT
66 CAACCCT
* * * *
96514 TGTGTCTCATGTACATTAATTCTCAAAATAGTATGCACACACGGTCTGGCACACGCTCGTGT
1 TGTGTCCCATGTACATTAATTCACAAAATAGTATGCACACACAGTCTGGCACACACTCGTGT
96576 GCACTCTGCA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
72 54 1.00
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (72 bp):
TGTGTCCCATGTACATTAATTCACAAAATAGTATGCACACACAGTCTGGCACACACTCGTGTACC
CAACCCT
Found at i:98137 original size:143 final size:142
Alignment explanation
Indices: 97938--98581 Score: 724
Period size: 143 Copynumber: 4.5 Consensus size: 142
97928 ATGATAGCTA
* * * *
97938 TTTATCTTTAATTTTGTAACAAACTTCGCCTCAAAATTAGATTTTTAATATTTAAAATAGAAATT
1 TTTATCTTTGATTTTGTAACAAACTTCGCCTCAAAATTCGAGTTTCAATATTTAAAA-AGAAATT
* * * *
98003 GAAAAAATTCATAAGACACAAAAACTTCGCTATGAATCATATGGTAAATTTCCATTTTAACCTCT
65 GAAAAAAATCATAAGACACAAGAACTTCGCTATGCATCACATGGTAAATTTCCATTTTAACCTCT
*
98068 TAAAAATTTATTC
130 TAAAAATTTATAC
* *
98081 TTTAGCTTTGATTTTGTAACAAACTTCGCCTCAAAAATCGAGTTTCAATATTTAAAAAAGAAATT
1 TTTATCTTTGATTTTGTAACAAACTTCGCCTCAAAATTCGAGTTTCAATATTT-AAAAAGAAATT
* * * * *
98146 GAAAAAAATCATAAGACACAAGAACTTCACTGTGCATCACATGGTAAATTTTCGTTTTAATCTCT
65 GAAAAAAATCATAAGACACAAGAACTTCGCTATGCATCACATGGTAAATTTCCATTTTAACCTCT
*
98211 TAAAATTTTATAC
130 TAAAAATTTATAC
** * *** * * * * *
98224 TTTATCTTAAATTTTGTGATGGACTTTGCCTCAAAAATCAAGTTTCAGTATTTAAAAATTAAATT
1 TTTATCTTTGATTTTGTAACAAACTTCGCCTCAAAATTCGAGTTTCAATATTTAAAAA-GAAATT
* * * *
98289 GTAAAAAATCATAATACACAAGAACATCGCTATGCATCACATGGTAAATTTCCATTTTAAACTCT
65 GAAAAAAATCATAAGACACAAGAACTTCGCTATGCATCACATGGTAAATTTCCATTTTAACCTCT
98354 TAAAAATTTATA-
130 TAAAAATTTATAC
* * * * * *
98366 TTTATCTTCGATTCTG----ATATTTCGCCTCAAAATTCGAGTTTGAATACTTAAAAATGAAATT
1 TTTATCTTTGATTTTGTAACAAACTTCGCCTCAAAATTCGAGTTTCAATATTTAAAAA-GAAATT
* * *
98427 GAAAAAAATCATAAGACACAAGAACTCCTCTATGCATCACATGATAAATTTCCATTTTAACCTCT
65 GAAAAAAATCATAAGACACAAGAACTTCGCTATGCATCACATGGTAAATTTCCATTTTAACCTCT
*
98492 TAAAAGTTTATAC
130 TAAAAATTTATAC
** * * * ** *
98505 TTTATCTTTGATTCCGTAACAGACCTT-GTCTCAAAATTCGAGTTTTAGCATTTAAAAATAAAAT
1 TTTATCTTTGATTTTGTAACA-AACTTCGCCTCAAAATTCGAGTTTCAATATTTAAAAA-GAAAT
*
98569 TAAAAAGAAATCA
64 TGAAAA-AAATCA
98582 GAAAAATTCC
Statistics
Matches: 422, Mismatches: 70, Indels: 17
0.83 0.14 0.03
Matches are distributed among these distances:
138 104 0.25
139 14 0.03
142 18 0.04
143 274 0.65
144 12 0.03
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.36
Consensus pattern (142 bp):
TTTATCTTTGATTTTGTAACAAACTTCGCCTCAAAATTCGAGTTTCAATATTTAAAAAGAAATTG
AAAAAAATCATAAGACACAAGAACTTCGCTATGCATCACATGGTAAATTTCCATTTTAACCTCTT
AAAAATTTATAC
Found at i:98477 original size:281 final size:283
Alignment explanation
Indices: 97998--98512 Score: 757
Period size: 281 Copynumber: 1.8 Consensus size: 283
97988 TTTAAAATAG
* *
97998 AAATTGAAAAAATTCATAAGACACAAAAACTTCGCTATGAATCATATGGTAAATTTCCATTTTAA
1 AAATTGAAAAAATTCATAAGACACAAAAACATCGCTATGAATCACATGGTAAATTTCCATTTTAA
* * * *
98063 CCTCTTAAAAATTTATTCTTTAGCTTTGATTTTGTAACAAACTTCGCCTCAAAAATCGAGTTTCA
66 ACTCTTAAAAATTTATTATTTAGCTTCGATTCTG--A-AAACTTCGCCTCAAAAATCGAGTTTCA
* * * *
98128 ATATTTAAAAAAGAAATTGAAAAAAATCATAAGACACAAGAACTTCACTGTGCATCACATGGTAA
128 ATACTTAAAAAAGAAATTGAAAAAAATCATAAGACACAAGAACTCCACTATGCATCACATGATAA
* * * *
98193 ATTTTCGTTTTAATCTCTTAAAATTTTATACTTTATCTTAAATTTTGTGATGGACTTTGCCTCAA
193 ATTTCCATTTTAACCTCTTAAAAGTTTATACTTTATCTTAAATTTTGTGATGGACTTTGCCTCAA
98258 AAATCAAGTTTCAGTATTTAAAAATT
258 AAATCAAGTTTCAGTATTTAAAAATT
* * *
98284 AAATTGTAAAAAA-TCATAATACACAAGAACATCGCTATGCATCACATGGTAAATTTCCATTTTA
1 AAATTG-AAAAAATTCATAAGACACAAAAACATCGCTATGAATCACATGGTAAATTTCCATTTTA
* * * * *
98348 AACTCTTAAAAATTTA-TATTTATCTTCGATTCTG-ATATTTCGCCTCAAAATTCGAGTTTGAAT
65 AACTCTTAAAAATTTATTATTTAGCTTCGATTCTGAAAACTTCGCCTCAAAAATCGAGTTTCAAT
* *
98411 ACTTAAAAATGAAATTGAAAAAAATCATAAGACACAAGAACTCCTCTATGCATCACATGATAAAT
130 ACTTAAAAAAGAAATTGAAAAAAATCATAAGACACAAGAACTCCACTATGCATCACATGATAAAT
98476 TTCCATTTTAACCTCTTAAAAGTTTATACTTTATCTT
195 TTCCATTTTAACCTCTTAAAAGTTTATACTTTATCTT
98513 TGATTCCGTA
Statistics
Matches: 204, Mismatches: 24, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
281 117 0.57
285 14 0.07
286 67 0.33
287 6 0.03
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (283 bp):
AAATTGAAAAAATTCATAAGACACAAAAACATCGCTATGAATCACATGGTAAATTTCCATTTTAA
ACTCTTAAAAATTTATTATTTAGCTTCGATTCTGAAAACTTCGCCTCAAAAATCGAGTTTCAATA
CTTAAAAAAGAAATTGAAAAAAATCATAAGACACAAGAACTCCACTATGCATCACATGATAAATT
TCCATTTTAACCTCTTAAAAGTTTATACTTTATCTTAAATTTTGTGATGGACTTTGCCTCAAAAA
TCAAGTTTCAGTATTTAAAAATT
Found at i:98540 original size:281 final size:283
Alignment explanation
Indices: 97987--98574 Score: 754
Period size: 281 Copynumber: 2.1 Consensus size: 283
97977 GATTTTTAAT
* *
97987 ATTT-AAAATAGAAATTGAAAAAATTCATAAGACACAAAAACTTCGCTATGAATCATATGGTAAA
1 ATTTAAAAATA-AAATTGAAAAAATTCATAAGACACAAAAACATCGCTATGAATCACATGGTAAA
* * * *
98051 TTTCCATTTTAACCTCTTAAAAATTTATTCTTTAGCTTTGATTTTGTAACAAACTTCGCCTCAAA
65 TTTCCATTTTAAACTCTTAAAAATTTATTATTTAGCTTCGATTCTG--A-AAACTTCGCCTCAAA
* * *
98116 AATCGAGTTTCAATATTTAAAAAAGAAATTGAAAAAAATCATAAGACACAAGAACTTCACTGTGC
127 AATCGAGTTTCAATACTTAAAAAAGAAATTGAAAAAAATCATAAGACACAAGAACTCCACTATGC
* * * * * ** * **
98181 ATCACATGGTAAATTTTCGTTTTAATCTCTTAAAATTTTATACTTTATCTTAAATTTTGTGATGG
192 ATCACATGATAAATTTCCATTTTAACCTCTTAAAAGTTTATACTTTATCTTAAATTCCGTAACAG
* *
98246 ACTTTGCCTCAAAAATCAAGTTTCAGT
257 ACCTTGCCTCAAAAATCAAGTTTCAGC
* * * *
98273 ATTTAAAAATTAAATTGTAAAAAA-TCATAATACACAAGAACATCGCTATGCATCACATGGTAAA
1 ATTTAAAAATAAAATTG-AAAAAATTCATAAGACACAAAAACATCGCTATGAATCACATGGTAAA
* * * *
98337 TTTCCATTTTAAACTCTTAAAAATTTA-TATTTATCTTCGATTCTG-ATATTTCGCCTCAAAATT
65 TTTCCATTTTAAACTCTTAAAAATTTATTATTTAGCTTCGATTCTGAAAACTTCGCCTCAAAAAT
* * *
98400 CGAGTTTGAATACTTAAAAATGAAATTGAAAAAAATCATAAGACACAAGAACTCCTCTATGCATC
130 CGAGTTTCAATACTTAAAAAAGAAATTGAAAAAAATCATAAGACACAAGAACTCCACTATGCATC
**
98465 ACATGATAAATTTCCATTTTAACCTCTTAAAAGTTTATACTTTATCTTTGATTCCGTAACAGACC
195 ACATGATAAATTTCCATTTTAACCTCTTAAAAGTTTATACTTTATCTTAAATTCCGTAACAGACC
* * * *
98530 TTGTCTCAAAATTCGAGTTTTAGC
260 TTGCCTCAAAAATCAAGTTTCAGC
98554 ATTTAAAAATAAAATT-AAAAA
1 ATTTAAAAATAAAATTGAAAAA
98575 GAAATCAGAA
Statistics
Matches: 261, Mismatches: 39, Indels: 11
0.84 0.13 0.04
Matches are distributed among these distances:
279 5 0.02
281 160 0.61
285 14 0.05
286 71 0.27
287 11 0.04
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.35
Consensus pattern (283 bp):
ATTTAAAAATAAAATTGAAAAAATTCATAAGACACAAAAACATCGCTATGAATCACATGGTAAAT
TTCCATTTTAAACTCTTAAAAATTTATTATTTAGCTTCGATTCTGAAAACTTCGCCTCAAAAATC
GAGTTTCAATACTTAAAAAAGAAATTGAAAAAAATCATAAGACACAAGAACTCCACTATGCATCA
CATGATAAATTTCCATTTTAACCTCTTAAAAGTTTATACTTTATCTTAAATTCCGTAACAGACCT
TGCCTCAAAAATCAAGTTTCAGC
Found at i:99764 original size:33 final size:32
Alignment explanation
Indices: 99726--99794 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 32
99716 CTTACTTTAA
99726 AATTCAAATTAATCCTTTAAAAATCCTAACTAG
1 AATTCAAATTAATCCTTTAAAAATCCTAA-TAG
** * **
99759 AATTCAAATTTCTCTTTTTCAAATCCTAATAG
1 AATTCAAATTAATCCTTTAAAAATCCTAATAG
99791 AATT
1 AATT
99795 TATCTTTCTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
32 7 0.23
33 24 0.77
ACGTcount: A:0.41, C:0.17, G:0.03, T:0.39
Consensus pattern (32 bp):
AATTCAAATTAATCCTTTAAAAATCCTAATAG
Found at i:100281 original size:58 final size:57
Alignment explanation
Indices: 100179--100367 Score: 193
Period size: 58 Copynumber: 3.3 Consensus size: 57
100169 ATGTATCACC
* * *
100179 ATTTTACAGATTTTATAGTTCTGCCACTA-TTTTCCAAAACTTTACAGTT-TCGCCACT
1 ATTTTCCAGATTTTATAGTTCTACCACTAGTTTTCC-AAATTTTACAGTTAT-GCCACT
* * *
100236 GGTTTTCCAGATTTTATAGTTCTACCACTAGTTTTTCATATTTTACAGTTATGCCACT
1 -ATTTTCCAGATTTTATAGTTCTACCACTAGTTTTCCAAATTTTACAGTTATGCCACT
* * * * * * *
100294 ATTTTCCACAATTTTATAGTTTTACCAATGGCTTTCCAAATTTTACAGTTCTGCAACT
1 ATTTTCCA-GATTTTATAGTTCTACCACTAGTTTTCCAAATTTTACAGTTATGCCACT
*
100352 ATTTTTCTAGATTTTA
1 A-TTTTCCAGATTTTA
100368 CAATTTTGCC
Statistics
Matches: 109, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
57 7 0.06
58 90 0.83
59 12 0.11
ACGTcount: A:0.25, C:0.20, G:0.10, T:0.46
Consensus pattern (57 bp):
ATTTTCCAGATTTTATAGTTCTACCACTAGTTTTCCAAATTTTACAGTTATGCCACT
Found at i:100337 original size:87 final size:87
Alignment explanation
Indices: 100186--100369 Score: 226
Period size: 87 Copynumber: 2.1 Consensus size: 87
100176 ACCATTTTAC
* * * * * *
100186 AGATTTTATAGTTCTGCCACTATTTTCCAAAACTTTACAGTTTCGCCACTGGTTTTCCAGATTTT
1 AGATTTTACAGTTATGCCACTATTTTCCAAAACTTTACAGTTTCACCAATGGCTTTCCAAATTTT
* *
100251 ATAGTTCTACCACTAGTTTTTC-
66 ACAGTTCTACAACTA-TTTTTCT
* * * * *
100273 ATATTTTACAGTTATGCCACTATTTTCCACAATTTTATAGTTTTACCAATGGCTTTCCAAATTTT
1 AGATTTTACAGTTATGCCACTATTTTCCAAAACTTTACAGTTTCACCAATGGCTTTCCAAATTTT
*
100338 ACAGTTCTGCAACTATTTTTCT
66 ACAGTTCTACAACTATTTTTCT
100360 AGATTTTACA
1 AGATTTTACA
100370 ATTTTGCCTT
Statistics
Matches: 81, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
86 6 0.07
87 75 0.93
ACGTcount: A:0.26, C:0.20, G:0.10, T:0.45
Consensus pattern (87 bp):
AGATTTTACAGTTATGCCACTATTTTCCAAAACTTTACAGTTTCACCAATGGCTTTCCAAATTTT
ACAGTTCTACAACTATTTTTCT
Found at i:100358 original size:29 final size:28
Alignment explanation
Indices: 100179--100356 Score: 133
Period size: 29 Copynumber: 6.2 Consensus size: 28
100169 ATGTATCACC
* * *
100179 ATTTTACAGATTTTATAGTTCTGCCACT
1 ATTTTCCAAATTTTACAGTTCTGCCACT
*
100207 ATTTTCCAAAACTTTACAGTT-TCGCCACT
1 ATTTTCC-AAATTTTACAGTTCT-GCCACT
* * * *
100236 GGTTTTCCAGATTTTATAGTTCTACCACT
1 -ATTTTCCAAATTTTACAGTTCTGCCACT
* * *
100265 AGTTTTTCATATTTTACAGTTATGCCACT
1 A-TTTTCCAAATTTTACAGTTCTGCCACT
* * * *
100294 ATTTTCCACAATTTTATAGTTTTACCAAT
1 ATTTTCCA-AATTTTACAGTTCTGCCACT
** *
100323 GGCTTTCCAAATTTTACAGTTCTGCAACT
1 -ATTTTCCAAATTTTACAGTTCTGCCACT
100352 ATTTT
1 ATTTT
100357 TCTAGATTTT
Statistics
Matches: 113, Mismatches: 30, Indels: 14
0.72 0.19 0.09
Matches are distributed among these distances:
28 16 0.14
29 84 0.74
30 13 0.12
ACGTcount: A:0.25, C:0.20, G:0.10, T:0.45
Consensus pattern (28 bp):
ATTTTCCAAATTTTACAGTTCTGCCACT
Found at i:102260 original size:48 final size:49
Alignment explanation
Indices: 102204--102299 Score: 158
Period size: 49 Copynumber: 2.0 Consensus size: 49
102194 TCCATATAGA
* *
102204 ACTACACTT-TTTTATTTTATTTTAATTAGAATAAGGTTTTTCAACCTT
1 ACTACACTTCTTTTATTTGACTTTAATTAGAATAAGGTTTTTCAACCTT
*
102252 ACTACACTTCTTTTATTTGACTTTGATTAGAATAAGGTTTTTCAACCT
1 ACTACACTTCTTTTATTTGACTTTAATTAGAATAAGGTTTTTCAACCT
102300 ATAAATAGAT
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
48 9 0.20
49 35 0.80
ACGTcount: A:0.28, C:0.15, G:0.08, T:0.49
Consensus pattern (49 bp):
ACTACACTTCTTTTATTTGACTTTAATTAGAATAAGGTTTTTCAACCTT
Found at i:108425 original size:48 final size:49
Alignment explanation
Indices: 108330--108425 Score: 142
Period size: 49 Copynumber: 2.0 Consensus size: 49
108320 TTCATATAGA
*
108330 ACTACACTTCTTTTATTTTATATTAATTAGAATAAGGTTTTTCAACCTT
1 ACTACACTTCTTTTATTTTATATTAATTAGAATAAGGTATTTCAACCTT
* *
108379 ACTACACTTCTTTTA-TTTATCTTTGATTAGAATAA-GTATTTCAACCT
1 ACTACACTTCTTTTATTTTAT-ATTAATTAGAATAAGGTATTTCAACCT
108426 ATAAATAGAT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
48 16 0.37
49 27 0.63
ACGTcount: A:0.30, C:0.16, G:0.06, T:0.48
Consensus pattern (49 bp):
ACTACACTTCTTTTATTTTATATTAATTAGAATAAGGTATTTCAACCTT
Found at i:110160 original size:27 final size:29
Alignment explanation
Indices: 110109--110163 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 29
110099 CAAATTAAAT
*
110109 CCTTTTATTTTTATTCTTTTAAAAATTTC
1 CCTTTTATTTCTATTCTTTTAAAAATTTC
110138 CCTTTTA-TTCTATT-TTTTAAAAATTT
1 CCTTTTATTTCTATTCTTTTAAAAATTT
110164 AATCTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 12 0.48
28 6 0.24
29 7 0.28
ACGTcount: A:0.25, C:0.13, G:0.00, T:0.62
Consensus pattern (29 bp):
CCTTTTATTTCTATTCTTTTAAAAATTTC
Found at i:110172 original size:29 final size:30
Alignment explanation
Indices: 110100--110184 Score: 88
Period size: 28 Copynumber: 2.9 Consensus size: 30
110090 CTCAATTTTC
* * *
110100 AAATTAAATCCTTTTATTTTTATTCTTTTAA
1 AAATTTAATCCTTTTA-TTCTATTATTTTAA
*
110131 AAATTT--CCCTTTTATTCTATT-TTTTAA
1 AAATTTAATCCTTTTATTCTATTATTTTAA
*
110158 AAATTTAAT-CTTTTTTTCTATTATTTT
1 AAATTTAATCCTTTTATTCTATTATTTT
110185 TTATAATTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
27 12 0.26
28 18 0.39
29 11 0.24
31 5 0.11
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.61
Consensus pattern (30 bp):
AAATTTAATCCTTTTATTCTATTATTTTAA
Found at i:116979 original size:18 final size:18
Alignment explanation
Indices: 116952--116987 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
116942 AAGGAATACA
*
116952 AAATACAAAAAATAAAAT
1 AAATAAAAAAAATAAAAT
116970 AAATAAAAAAAATAAAAT
1 AAATAAAAAAAATAAAAT
116988 CATATCTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.17
Consensus pattern (18 bp):
AAATAAAAAAAATAAAAT
Found at i:121431 original size:142 final size:143
Alignment explanation
Indices: 121200--121532 Score: 413
Period size: 142 Copynumber: 2.3 Consensus size: 143
121190 TTACTGTAAT
* * * * *
121200 AGACTTTGCCTCAAAATTCGAGTTTCAATATTTTAAAATGAAATTAGAA-AAATCATAAGACACA
1 AGACTTTACCTCAAAATTAGAGTTTCAATATTTAAAAATAAAATTA-AATAAATCATAAGAAACA
* *** * *
121264 CGAACTTTGCTATGCATCACATGGTAAATTTTCATTTTAAACTCTTAAAAATTTATA-TTTTATC
65 AGAACTCCACTATGCATCACATGGTAAATTTCCATTTTAAACTCTTAAAAATTTATACTTTTAAC
**
121328 ATTGATTCCTTAAC
130 ATTGATTCCGAAAC
* *
121342 GGA-TTT-CGCTCAAAATTAGAGTTTCAATATTTAAAAATTAAATTGAAATAAATCATAAGAAAC
1 AGACTTTAC-CTCAAAATTAGAGTTTCAATATTTAAAAATAAAATT-AAATAAATCATAAGAAAC
* *
121405 AAGAACTCCACTATGCATCACGTGGTAAATTTCCATTTTAACCTCTTAAAAATTTATACTTTTAA
64 AAGAACTCCACTATGCATCACATGGTAAATTTCCATTTTAAACTCTTAAAAATTTATACTTTTAA
* *
121470 CTTTGATTTCGAAAC
129 CATTGATTCCGAAAC
* * *
121485 AGACTTTACCTCAAAATTTGAGTTTTAATATTTAAAGATAAAATTAAA
1 AGACTTTACCTCAAAATTAGAGTTTCAATATTTAAAAATAAAATTAAA
121533 ATGGAATCAT
Statistics
Matches: 163, Mismatches: 22, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
140 1 0.01
141 38 0.23
142 67 0.41
143 21 0.13
144 35 0.21
145 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.36
Consensus pattern (143 bp):
AGACTTTACCTCAAAATTAGAGTTTCAATATTTAAAAATAAAATTAAATAAATCATAAGAAACAA
GAACTCCACTATGCATCACATGGTAAATTTCCATTTTAAACTCTTAAAAATTTATACTTTTAACA
TTGATTCCGAAAC
Found at i:122168 original size:143 final size:142
Alignment explanation
Indices: 121835--122311 Score: 514
Period size: 143 Copynumber: 3.3 Consensus size: 142
121825 GGGTTTCGTT
* *
121835 TCAAAATTCAAGTTTCAATATTTTAAAATGAAACTGAAAAAAAATCATAAGACACAAGAACTTCG
1 TCAAAATTCAAGTTTCAATATTTAAAAATGAAATTG-AAAAAAATCATAAGACACAAGAACTTCG
* * * * * * * *
121900 TTATGAATCACATGATAAATTTCCATTTTAACCA-CTAAAAAAGTTT-ATATTATCTTAGAATCG
65 TTATGCATCACATGGTAATTTTCCATTTTAA-CATCTTAAAAA-TTTAATTTTATCTTTGATTCC
* * *
121963 GAAACATACTTCATC
128 GTAACAGACTTCACC
* ** * *
121978 TTAAAATTTGAGTTTCAATATTTAAAAATGAAATTGAAGAAAATCATAATACACAAGAACTTCGT
1 TCAAAATTCAAGTTTCAATATTTAAAAATGAAATTGAAAAAAATCATAAGACACAAGAACTTCGT
* *
122043 TATGCATCACATGGTAATTTTCCATTTTAAAATCTTAAAAATTTACATTTTATCTTTGATTCCCT
66 TATGCATCACATGGTAATTTTCCATTTTAACATCTTAAAAATTTA-ATTTTATCTTTGATTCCGT
*
122108 AACAGAATTCACC
130 AACAGACTTCACC
* * * ** * **
122121 TCAAAATTCAAGTTTGAATATTTAAAAATTAAATTGAAATAAATCATAAGACGTAAGAACTCCAC
1 TCAAAATTCAAGTTTCAATATTTAAAAATGAAATTGAAAAAAATCATAAGACACAAGAACTTCGT
* * * * *
122186 TATGCAACGCATGGTTAATTTT-CATTTTAACCTCTTAAAAATTT-ATGCTTTAACTTTGATTTC
66 TATGCATCACATGG-TAATTTTCCATTTTAACATCTTAAAAATTTAAT--TTTATCTTTGATTCC
122249 GTAACAGACTTCACC
128 GTAACAGACTTCACC
* * * *
122264 TCAAAATTAAAGTTTTAATACTTAAAAATAAAATT-AAAAAAATCATAA
1 TCAAAATTCAAGTTTCAATATTTAAAAATGAAATTGAAAAAAATCATAA
122312 AAACACGTAA
Statistics
Matches: 281, Mismatches: 47, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
141 6 0.02
142 73 0.26
143 195 0.69
144 7 0.02
ACGTcount: A:0.43, C:0.14, G:0.08, T:0.34
Consensus pattern (142 bp):
TCAAAATTCAAGTTTCAATATTTAAAAATGAAATTGAAAAAAATCATAAGACACAAGAACTTCGT
TATGCATCACATGGTAATTTTCCATTTTAACATCTTAAAAATTTAATTTTATCTTTGATTCCGTA
ACAGACTTCACC
Found at i:122886 original size:142 final size:141
Alignment explanation
Indices: 122497--122978 Score: 528
Period size: 143 Copynumber: 3.4 Consensus size: 141
122487 TTCTCAACAC
* * * *
122497 TTAATTCCGTAACATACTTTC-CCTCAAAATTCAAGTTTCAATATTTCAAAA-AAATTGAAAAAT
1 TTAATTCCGTAATAGAC-TTCGCCTCAAAATTCGAGTTTCAATATTTAAAAATAAATTGAAAAA-
* * ** * *
122560 ATCATAACACAAAAAAAATTCTTTATGAATCATATGATAAATTTCTATTTTAACCAT-TTAAAAA
64 ATCATAAGACAAAAGAAATTCGCTATGCATCATATGGTAAATTTCTATTTTAACC-TCTTAAAAA
122624 TTTAT-TCTTTATTTTT
128 TTTATAT-TTTA--TTT
* ** * *
122640 TTTATTTTGTAATAGACTTCGCCTAAAAATTCGAGTTTCAATATGTAAAAATGAAATTGAAAAAA
1 TTAATTCCGTAATAGACTTCGCCTCAAAATTCGAGTTTCAATATTTAAAAAT-AAATTGAAAAAA
* *
122705 TCATAAGACAAAAGAATTTCGCTATGCATCATATGGTAAATTT-TCATTTTAAACTCTT-AAAAT
65 TCATAAGACAAAAGAAATTCGCTATGCATCATATGGTAAATTTCT-ATTTTAACCTCTTAAAAAT
*
122768 TTATATTTTATCT
129 TTATATTTTATTT
* * * *
122781 TTGATTCCGTAATGGATTTTGCCTCAAAATTCGAGTTTCAATATTTAAAAATTAAATTGAAACAA
1 TTAATTCCGTAATAGACTTCGCCTCAAAATTCGAGTTTCAATATTTAAAAA-TAAATTGAAA-AA
* * * *
122846 ATCATAAGACACAAGAACTTCGCTATGCATCACATGGTAAAATTCTATTTTAACCTCTTAAAAAT
64 ATCATAAGACAAAAGAAATTCGCTATGCATCATATGGTAAATTTCTATTTTAACCTCTTAAAAAT
*
122911 TTATACTTTATTT
129 TTATATTTTATTT
* * * * *
122924 TTAATTCCATAACAGACTTCGCCTCAAAATTTC-AGTTTTAATAGTCAAAAATAAA
1 TTAATTCCGTAATAGACTTCGCCTCAAAA-TTCGAGTTTCAATATTTAAAAATAAA
122979 ATGAGAATGA
Statistics
Matches: 286, Mismatches: 42, Indels: 23
0.81 0.12 0.07
Matches are distributed among these distances:
141 54 0.19
142 62 0.22
143 108 0.38
144 51 0.18
145 11 0.04
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (141 bp):
TTAATTCCGTAATAGACTTCGCCTCAAAATTCGAGTTTCAATATTTAAAAATAAATTGAAAAAAT
CATAAGACAAAAGAAATTCGCTATGCATCATATGGTAAATTTCTATTTTAACCTCTTAAAAATTT
ATATTTTATTT
Found at i:123544 original size:147 final size:143
Alignment explanation
Indices: 123355--123754 Score: 435
Period size: 143 Copynumber: 2.8 Consensus size: 143
123345 GAACTTCGTT
** * * *
123355 ATGGTAAATTTCCATTTTAGCCACTTAAAAATTTATTTTTTATCTTTGATTCTGTAACAAACTTC
1 ATGGTAAATTTCCATTTTAAACTCTTAAAAATTTATATTTTATCTTTGATTCTGTAACAAACTTT
* * *
123420 GCCTCAAAATTCGAATTTCAATATTTAAACATGAAATTGAAAAAAAAAAAAATTAAGACGCAAGA
66 ACCTCAAAATTCGAATTTCAATATTTAAAAATGAAATTG---AAAAAAAAAA-TAAGACACAAGA
* **
123485 CCTTTACTATACATCAC
127 ACTCCACTATACATCAC
* * * * *
123502 ATGGTAAATTTCCATTTCAAACTCTTAAAATTTTATATTTTATATTTGATTCTGTAACGAATTTT
1 ATGGTAAATTTCCATTTTAAACTCTTAAAAATTTATATTTTATCTTTGATTCTGTAACAAACTTT
* * * * * **
123567 ACCTCAAAATTAGAGTGTCAATATTTAAAAATTAAATTGAAACAAATCATAAGACACAAGAACTC
66 ACCTCAAAATTCGAATTTCAATATTTAAAAATGAAATTGAAAAAAAAAATAAGACACAAGAACTC
* * *
123632 CGCTATGCATCTC
131 CACTATACATCAC
* * * *
123645 ATGGTAAATTTCCATTTTAAACTATTAAAAATTTATATTTTATCATTGATTCCGTGACAAACTTT
1 ATGGTAAATTTCCATTTTAAACTCTTAAAAATTTATATTTTATCTTTGATTCTGTAACAAACTTT
* * * *
123710 ACTTGAAAATTCGAATTTTAATATTTTAAAAT-ATAATT-AAAAAAA
66 ACCTCAAAATTCGAATTTCAATATTTAAAAATGA-AATTGAAAAAAA
123755 TCGTAAAAAC
Statistics
Matches: 209, Mismatches: 43, Indels: 7
0.81 0.17 0.03
Matches are distributed among these distances:
142 7 0.03
143 107 0.51
144 7 0.03
147 88 0.42
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.37
Consensus pattern (143 bp):
ATGGTAAATTTCCATTTTAAACTCTTAAAAATTTATATTTTATCTTTGATTCTGTAACAAACTTT
ACCTCAAAATTCGAATTTCAATATTTAAAAATGAAATTGAAAAAAAAAATAAGACACAAGAACTC
CACTATACATCAC
Found at i:123967 original size:18 final size:17
Alignment explanation
Indices: 123944--123980 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
123934 AGATTGTAAA
123944 AATTTTGTTAAGTGAATT
1 AATTTTGTTAAGTG-ATT
*
123962 AATTTTGTTTAGTGATT
1 AATTTTGTTAAGTGATT
123979 AA
1 AA
123981 GTATTATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.51
Consensus pattern (17 bp):
AATTTTGTTAAGTGATT
Found at i:126901 original size:147 final size:145
Alignment explanation
Indices: 126618--126945 Score: 435
Period size: 147 Copynumber: 2.2 Consensus size: 145
126608 CCCGTAACGG
* * *
126618 ACTTCACCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTGAAAAAACAATTATAAGACACA
1 ACTTCGCCTCAAAATTTGAGTTT-AATATTTAAAAATGAAATTGAAAAAAAAATTATAAGACACA
* * *
126683 AAAACTTTCTCTATGAATCACATGGAAAATTTCAATTTTAACCTCTTAAAAAATTAAACTTTATC
65 AAAACTTCCGCTATGAATCACATGGAAAATTTCAATTTTAACCTCCTAAAAAATTAAACTTTATC
126748 TATGATTCCATAATAA
130 TATGATTCCATAATAA
126764 ACTTCGCCTCAAAATTTGAGTTATAATATTTAAAAATGAAATTGAAAAAAAAAAATTATAAGACA
1 ACTTCGCCTCAAAATTTGAGTT-TAATATTTAAAAATGAAATTG--AAAAAAAAATTATAAGACA
* * * * * * *
126829 CAAGAA-TTCCGCTATGCATCACATGGTAAATTTCCATTTTAACTTCCTACAAATTTAAACTTTA
63 CAAAAACTTCCGCTATGAATCACATGGAAAATTTCAATTTTAACCTCCTAAAAAATTAAACTTTA
* *
126893 TCCT-TGATTCCGTAATAG
128 T-CTATGATTCCATAATAA
* *
126911 ACTTTGCCTCAAAATTTAAGTTTTAATATTTAAAA
1 ACTTCGCCTCAAAATTTGAG-TTTAATATTTAAAA
126946 GAATAATTAA
Statistics
Matches: 160, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
146 40 0.25
147 93 0.58
148 27 0.17
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.34
Consensus pattern (145 bp):
ACTTCGCCTCAAAATTTGAGTTTAATATTTAAAAATGAAATTGAAAAAAAAATTATAAGACACAA
AAACTTCCGCTATGAATCACATGGAAAATTTCAATTTTAACCTCCTAAAAAATTAAACTTTATCT
ATGATTCCATAATAA
Found at i:127480 original size:141 final size:141
Alignment explanation
Indices: 127183--127483 Score: 338
Period size: 141 Copynumber: 2.1 Consensus size: 141
127173 GGCAATTGGG
* * * *
127183 GTTTGAATATTTAAAAACGAAATTGAAACAAATCATAAGACACAAGAACTCTGCTATGCATCACA
1 GTTTGAATATTT-AAAATGAAATTGAAACAAACCATAAGACAAAAGAACTCCGCTATGCATCACA
* * * * ** *
127248 TGATAAATTTCCATTTTAAACTTTAAAAAATTTATATTTTATATTTGATTCAGTAATGAATTTCA
65 AGATAAATTTCCATTTTAAACTTTAAAAAATTTATATTTCATATGTGATTCACTAACAAACTTCA
*
127313 CCTCAAATTCGA
130 CCTAAAATTCGA
* * *
127325 GTTTGATTATTTTAAAATGAAATTTAAA-AAACCATAAGACAAAAGAATTCCGCTATGCATCACA
1 GTTTGAATA-TTTAAAATGAAATTGAAACAAACCATAAGACAAAAGAACTCCGCTATGCATCACA
* * * * *
127389 AGGTAAATTTCCATTTTAACCTCTT-ACAAATTTATATTTCATCTGTGA-TCCCTAAACAAACTT
65 AGATAAATTTCCATTTTAAACT-TTAAAAAATTTATATTTCATATGTGATTCACT-AACAAACTT
*
127452 CACCTAAAATTTTGA
128 CACCTAAAA-TTCGA
*
127467 GTTTTAATATTTAAAAT
1 GTTTGAATATTTAAAAT
127484 TAAACTATAA
Statistics
Matches: 132, Mismatches: 23, Indels: 9
0.80 0.14 0.05
Matches are distributed among these distances:
140 3 0.02
141 92 0.70
142 34 0.26
143 3 0.02
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.36
Consensus pattern (141 bp):
GTTTGAATATTTAAAATGAAATTGAAACAAACCATAAGACAAAAGAACTCCGCTATGCATCACAA
GATAAATTTCCATTTTAAACTTTAAAAAATTTATATTTCATATGTGATTCACTAACAAACTTCAC
CTAAAATTCGA
Found at i:128232 original size:143 final size:141
Alignment explanation
Indices: 127803--128237 Score: 468
Period size: 141 Copynumber: 3.1 Consensus size: 141
127793 ACTTTCCCTT
127803 AAAATTCAAGTTTCAATATTTAAAAATGAAATTGAAAAAAAT-AATAAGACACAAGAACTTTGTT
1 AAAATTC-AGTTTCAATATTTAAAAATGAAATTG-AAAAAATCAA-AAGACACAAGAACTTTGTT
* * * *
127867 ATGCATCACATGGTAAATTTTCATTTTAACCTCTTAAAAATTTATAATTTACCTTTAATTTTGTA
63 TTGCATCACATGGTAAATTTTCATTTTAACCTCTTAAAAATTTATAATTTATCTTTGATTTCGTA
* *
127932 ACGTA-CTTCGCTTC
128 AC-TAGATTCGCATC
* ** * * *
127946 AAAATTCGAGTTTCAATATTT-AAAATTAAATTGAAAAAATCTTAACACATAAGAACTTTGCTTT
1 AAAATTC-AGTTTCAATATTTAAAAATGAAATTGAAAAAATCAAAAGACACAAGAACTTTGTTTT
** * * *
128010 GCATCACACAGTAAATTTTCATTTTAACCTCTTAAAAATTTAT-TTGTTATCTTTGATTCCATAA
65 GCATCACATGGTAAATTTTCATTTTAACCTCTTAAAAATTTATAAT-TTATCTTTGATTTCGTAA
** *
128074 CGGGATTCGCCTC
129 CTAGATTCGCATC
** * * *
128087 AAAATTCATGTTTGTATATTTAAAAATGAAATTGAAAAACATCCAAAGGCACAAGAACTTCGTTT
1 AAAATTCA-GTTTCAATATTTAAAAATGAAATTGAAAAA-ATCAAAAGACACAAGAACTTTGTTT
* * * * *
128152 TGCATCACATGGTAAAATTTCGTTTT-ACCCCTTTAAAATTTTATACTTTATCTTTGATTTCGTA
64 TGCATCACATGGTAAATTTTCATTTTAACCTC-TTAAAAATTTATAATTTATCTTTGATTTCGTA
128216 A-TAGATTCCGCATC
128 ACTAGATT-CGCATC
128230 AAAATTCA
1 AAAATTCA
128238 AATTTTAATA
Statistics
Matches: 241, Mismatches: 42, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
140 2 0.01
141 103 0.43
142 35 0.15
143 100 0.41
144 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (141 bp):
AAAATTCAGTTTCAATATTTAAAAATGAAATTGAAAAAATCAAAAGACACAAGAACTTTGTTTTG
CATCACATGGTAAATTTTCATTTTAACCTCTTAAAAATTTATAATTTATCTTTGATTTCGTAACT
AGATTCGCATC
Found at i:128249 original size:143 final size:142
Alignment explanation
Indices: 127803--128250 Score: 485
Period size: 143 Copynumber: 3.1 Consensus size: 142
127793 ACTTTCCCTT
127803 AAAATTCAAGTTTCAATATTTAAAAATGAAATTGAAAAAAAT-AATAAGACACAAGAACTTTGTT
1 AAAATTCAAGTTTCAATATTTAAAAATGAAATTG-AAAAAATCAA-AAGACACAAGAACTTTGTT
* * * *
127867 ATGCATCACATGGTAAATTTTCATTTTAACCTCTTAAAAATTTATAATTTACCTTTAATTTTGTA
64 TTGCATCACATGGTAAATTTTCATTTTAACCTCTTAAAAATTTATAATTTATCTTTGATTTCGTA
* *
127932 ACGTA-CTTCGCTTC
129 AC-TAGATTCGCATC
* * ** * * *
127946 AAAATTCGAGTTTCAATATTT-AAAATTAAATTGAAAAAATCTTAACACATAAGAACTTTGCTTT
1 AAAATTCAAGTTTCAATATTTAAAAATGAAATTGAAAAAATCAAAAGACACAAGAACTTTGTTTT
** * * *
128010 GCATCACACAGTAAATTTTCATTTTAACCTCTTAAAAATTTAT-TTGTTATCTTTGATTCCATAA
66 GCATCACATGGTAAATTTTCATTTTAACCTCTTAAAAATTTATAAT-TTATCTTTGATTTCGTAA
** *
128074 CGGGATTCGCCTC
130 CTAGATTCGCATC
* ** * * *
128087 AAAATTCATGTTTGTATATTTAAAAATGAAATTGAAAAACATCCAAAGGCACAAGAACTTCGTTT
1 AAAATTCAAGTTTCAATATTTAAAAATGAAATTGAAAAA-ATCAAAAGACACAAGAACTTTGTTT
* * * * *
128152 TGCATCACATGGTAAAATTTCGTTTT-ACCCCTTTAAAATTTTATACTTTATCTTTGATTTCGTA
65 TGCATCACATGGTAAATTTTCATTTTAACCTC-TTAAAAATTTATAATTTATCTTTGATTTCGTA
128216 A-TAGATTCCGCATC
129 ACTAGATT-CGCATC
* *
128230 AAAATTCAAATTTTAATATTT
1 AAAATTCAAGTTTCAATATTT
128251 TTAATTTAAA
Statistics
Matches: 249, Mismatches: 48, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
140 1 0.00
141 103 0.41
142 35 0.14
143 109 0.44
144 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (142 bp):
AAAATTCAAGTTTCAATATTTAAAAATGAAATTGAAAAAATCAAAAGACACAAGAACTTTGTTTT
GCATCACATGGTAAATTTTCATTTTAACCTCTTAAAAATTTATAATTTATCTTTGATTTCGTAAC
TAGATTCGCATC
Found at i:129036 original size:142 final size:142
Alignment explanation
Indices: 128774--129170 Score: 490
Period size: 142 Copynumber: 2.8 Consensus size: 142
128764 TAGCTATTTG
* * * * * *
128774 TCTTTGATTTCGTAATAGATTTTGCCTCAAAATTCTAGTTTCAATATTTAAAAATGAAATTAAAA
1 TCTTTGATTTTGTAATGGACTTCGCCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATT-GAA
* * * *
128839 AAAATCACAAGACACAAGAACTTCGTTATGCATCGCATGGTAAATTTCTAGTTTAACATCTTAAA
65 AAAATCATAAGACTCAAGAACTTCGCTATGCATCACATGGTAAATTTCTAGTTTAACATCTTAAA
* *
128904 TATTTATACTTTA
130 AATTTATACTTGA
* * * *
128917 TCTTTGATTTTGTAATGGACTTCACCTCAAAAATCGAGTTTCAATGTTTAAAATTGAAATTGAAA
1 TCTTTGATTTTGTAATGGACTTCGCCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTGAAA
* * * *
128982 AAATCATAAGACTCAAGAACTTCACCATGCATCACATGGTAAATTTCTATTTTAACCTCTTAAAA
66 AAATCATAAGACTCAAGAACTTCGCTATGCATCACATGGTAAATTTCTAGTTTAACATCTTAAAA
129047 ATTTATACTTGA
131 ATTTATACTTGA
* * * * *
129059 TCTTAGATTCTGTAACGGACTTCGCCTCAAAATTCGAATTTCAATATTTAAAAATGGAATTGTAA
1 TCTTTGATTTTGTAATGGACTTCGCCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTG-AA
** * * *
129124 AATCTCATAAGA-TACAAGAACTTCGCTATACATAATATGGTAAATTT
65 AAAATCATAAGACT-CAAGAACTTCGCTATGCATCACATGGTAAATTT
129171 ACGTTTTAAC
Statistics
Matches: 216, Mismatches: 36, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
142 124 0.57
143 92 0.43
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (142 bp):
TCTTTGATTTTGTAATGGACTTCGCCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTGAAA
AAATCATAAGACTCAAGAACTTCGCTATGCATCACATGGTAAATTTCTAGTTTAACATCTTAAAA
ATTTATACTTGA
Found at i:138331 original size:21 final size:22
Alignment explanation
Indices: 138277--138320 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
138267 TGTGGGTATC
*
138277 AAAGAGGA-GAAAGAAGAAGAA
1 AAAGAAGACGAAAGAAGAAGAA
138298 AAAGAAGACGAAAG-AGAAGAA
1 AAAGAAGACGAAAGAAGAAGAA
138319 AA
1 AA
138321 GAAAGAGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.68, C:0.02, G:0.30, T:0.00
Consensus pattern (22 bp):
AAAGAAGACGAAAGAAGAAGAA
Found at i:144670 original size:145 final size:142
Alignment explanation
Indices: 144454--144848 Score: 509
Period size: 145 Copynumber: 2.8 Consensus size: 142
144444 CGGACTTCGA
* * * * *
144454 CTCAAAATTCAAG--TCAATATTTAAAAATGAATTTGAAAAAAGTCATAAGGCACAAGAGCTTCG
1 CTCAAAATTCAAGTTTCAATATTTAAAAATGAAATTGAAAAAAATCATAAGACACAAGAACTTTG
* **
144517 CTATGCATCACATCGTAAATTTTCATTTTAACCTCTTAAACATTTATACTTTATCTTTGATTCTG
66 CCATGCATCACAT-GTAAATTTTCATTTTAACCTCTTAAACATTTATACTTTATCTTTGATTCCA
144582 TAACCG-A-TAAAC
130 TAA-CGAACTAAAC
*
144594 CTCAAAATTCTAGTTTCAATATTTAAAAATGAAATTGAAAAAAAAAATCATAAGACACAAGAACT
1 CTCAAAATTCAAGTTTCAATATTTAAAAATGAAATTG---AAAAAAATCATAAGACACAAGAACT
*
144659 TTGCCATGCATCACATGGTAAA-TATCTATTTTAACCTCTTAAACATTTATACTTTATCTTTGAT
63 TTGCCATGCATCACAT-GTAAATTTTC-ATTTTAACCTCTTAAACATTTATACTTTATCTTTGAT
**
144723 TCCATAACGAACTTCAC
126 TCCATAACGAACTAAAC
* *
144740 ATCAAAAATT-GAGTTTCAATATTTAAAAATGAAATCT-AAAAAAATCATAAGACACAAGAACTT
1 CTC-AAAATTCAAGTTTCAATATTTAAAAATGAAAT-TGAAAAAAATCATAAGACACAAGAACTT
*
144803 TGTCATGCATCACATGATAAATTTTCATTTTAACCTCTTAAA-ATTT
64 TGCCATGCATCACATG-TAAATTTTCATTTTAACCTCTTAAACATTT
144849 TGTACATTAT
Statistics
Matches: 226, Mismatches: 17, Indels: 22
0.85 0.06 0.08
Matches are distributed among these distances:
140 12 0.05
142 26 0.12
143 60 0.27
144 8 0.04
145 84 0.37
146 29 0.13
147 7 0.03
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.34
Consensus pattern (142 bp):
CTCAAAATTCAAGTTTCAATATTTAAAAATGAAATTGAAAAAAATCATAAGACACAAGAACTTTG
CCATGCATCACATGTAAATTTTCATTTTAACCTCTTAAACATTTATACTTTATCTTTGATTCCAT
AACGAACTAAAC
Found at i:144833 original size:143 final size:140
Alignment explanation
Indices: 144429--144933 Score: 542
Period size: 143 Copynumber: 3.5 Consensus size: 140
144419 TAGCTATTTG
* * *
144429 TCTTTGATTCTGTAACGGACTTCGA-CTC-AAAATTCAAG--TCAATATTTAAAAATGAATTTGA
1 TCTTTGATTCTGTAAC-GACTTC-ACCTCAAAAATT-GAGTTTCAATATTTAAAAATGAAATTAA
* * * *
144490 AAAAAGTCATAAGGCACAAGAGCTTCGCTATGCATCACATCGTAAATTTTCATTTTAACCTCTTA
63 AAAAAATCATAAGACACAAGAACTTTGC-ATGCATCACAT-GTAAATTTTCATTTTAACCTCTTA
144555 AACATTTATACTTTA
126 AACATTTATACTTTA
** *
144570 TCTTTGATTCTGTAACCGA-TAAACCTC-AAAATTCTAGTTTCAATATTTAAAAATGAAATTGAA
1 TCTTTGATTCTGTAA-CGACTTCACCTCAAAAATT-GAGTTTCAATATTTAAAAATGAAATT---
*
144633 AAAAAAAATCATAAGACACAAGAACTTTGCCATGCATCACATGGTAAA-TATCTATTTTAACCTC
61 AAAAAAAATCATAAGACACAAGAACTTTG-CATGCATCACAT-GTAAATTTTC-ATTTTAACCTC
144697 TTAAACATTTATACTTTA
123 TTAAACATTTATACTTTA
** *
144715 TCTTTGATTCCATAACGAACTTCACATCAAAAATTGAGTTTCAATATTTAAAAATGAAATCT-AA
1 TCTTTGATTCTGTAACG-ACTTCACCTCAAAAATTGAGTTTCAATATTTAAAAATGAAAT-TAAA
144779 AAAAATCATAAGACACAAGAACTTTGTCATGCATCACATGATAAATTTTCATTTTAACCTCTTAA
64 AAAAATCATAAGACACAAGAACTTTG-CATGCATCACATG-TAAATTTTCATTTTAACCTCTTAA
* *
144844 A-ATTTTGTACATTA
127 ACA-TTTATACTTTA
** * * * * * *
144858 TCTAAGATTGTGTAACGGTCTTCGCCTCAAAATTTGAGTTTTAATATTTAAAAATAAAATTAATA
1 TCTTTGATTCTGTAAC-GACTTCACCTCAAAAATTGAGTTTCAATATTTAAAAATGAAATTAA-A
*
144923 AGAAATCATAA
64 AAAAATCATAA
144934 AAACACGTGA
Statistics
Matches: 312, Mismatches: 33, Indels: 35
0.82 0.09 0.09
Matches are distributed among these distances:
139 1 0.00
140 13 0.04
141 17 0.05
142 24 0.08
143 117 0.38
144 20 0.06
145 83 0.27
146 30 0.10
147 7 0.02
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.35
Consensus pattern (140 bp):
TCTTTGATTCTGTAACGACTTCACCTCAAAAATTGAGTTTCAATATTTAAAAATGAAATTAAAAA
AAATCATAAGACACAAGAACTTTGCATGCATCACATGTAAATTTTCATTTTAACCTCTTAAACAT
TTATACTTTA
Found at i:145634 original size:137 final size:134
Alignment explanation
Indices: 145420--145670 Score: 360
Period size: 137 Copynumber: 1.9 Consensus size: 134
145410 TGTGTAATAT
* * ** * *
145420 GGTAAATTTCCATTTTAATCTTTTGAAAATTTATATTTATCTTTTATTTCATAATAGATTTCGCC
1 GGTAAATTTCCATTTTAACCTCTAAAAAATTTATATTTATCTTTGATTTCATAATAGATTTCACC
145485 TCAAAATTCAAGTTTGAATATTTAAAAATGAAAATTGAAAAAGAATCATAAGCCCCAAGAACTCT
66 TCAAAATTCAAGTTTGAATATTTAAAAAT-AAAATTGAAAAA-AATCATAAGCCCCAAGAACTCT
145550 GCACAG
129 GCACAG
* *
145556 GGTAAATTTTCATTTTAACCTCTAAATAAATTTATATTTTATCTTTGATTTCATAA-AGGTTTCA
1 GGTAAATTTCCATTTTAACCTCTAAA-AAATTTATA-TTTATCTTTGATTTCATAATAGATTTCA
* * *
145620 CCTCAAAATTCAAGTTTTAATATTTACAAATAAAATTTAAAAAAATCATAA
64 CCTCAAAATTCAAGTTTGAATATTTAAAAATAAAATTGAAAAAAATCATAA
145671 AATATGTGAA
Statistics
Matches: 102, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
135 8 0.08
136 32 0.31
137 44 0.43
138 18 0.18
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.39
Consensus pattern (134 bp):
GGTAAATTTCCATTTTAACCTCTAAAAAATTTATATTTATCTTTGATTTCATAATAGATTTCACC
TCAAAATTCAAGTTTGAATATTTAAAAATAAAATTGAAAAAAATCATAAGCCCCAAGAACTCTGC
ACAG
Found at i:146073 original size:143 final size:141
Alignment explanation
Indices: 145904--146355 Score: 611
Period size: 143 Copynumber: 3.2 Consensus size: 141
145894 TCGTCTCTAT
* *
145904 ATTCGAGTTTCAATATTTAAAAATGAAACTGAAATAAATTGTAAGACACAAGAACTTCGCTATGC
1 ATTCGAGTTTCAATATTTAAAAATGAAATTGAAA-AAATTATAAGACACAAGAACTTCGCTATGC
* *
145969 ATCACATGGTAAATTTCCATTTTAACCTTTTAAACATTTATACTTTATTTTTTATTCCATAACGG
65 ATCACATGGTAAATTTCCATTTTAACCTTTTAAA-ATTTATACTTTATCTTTGATTCCATAACGG
*
146034 ACTTCACCTCAATA
129 ACTTCGCCTCAA-A
* *
146048 A-TCGAGTTTCAATATTTAAAAATGAAATTGAAAAAAATTATAAGACACAAGAACTTCGCCATGT
1 ATTCGAGTTTCAATATTTAAAAATGAAATTG-AAAAAATTATAAGACACAAGAACTTCGCTATGC
* * **
146112 ATCACATGGTAAATTTCCATTTTAACCTATTAAAAATTTATACTTTATCTTAGATTCTGTAACGG
65 ATCACATGGTAAATTTCCATTTTAACCT-TTTAAAATTTATACTTTATCTTTGATTCCATAACGG
*
146177 ACTTCGTCTCAAA
129 ACTTCGCCTCAAA
* * * *
146190 ATTCGAATTTCAATATTTAAAAATGAAATTGTAAACAATTTTAAGACACAAGAACTTCACTATGC
1 ATTCGAGTTTCAATATTTAAAAATGAAATTG-AAAAAATTATAAGACACAAGAACTTCGCTATGC
* * * * *
146255 ATAACATGGTATATTTCCATTTTAACCTCTTCAAAA-TTAAATTTTATCTTTGATTCCATAACGG
65 ATCACATGGTAAATTTCCATTTTAACCT-TTTAAAATTTATACTTTATCTTTGATTCCATAACGG
*
146319 ATTTCGCCTCAAA
129 ACTTCGCCTCAAA
* *
146332 ATTTGAGTTTGAATATTTAAAAAT
1 ATTCGAGTTTCAATATTTAAAAAT
146356 AATAAGCCCT
Statistics
Matches: 272, Mismatches: 33, Indels: 8
0.87 0.11 0.03
Matches are distributed among these distances:
142 57 0.21
143 206 0.76
144 9 0.03
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.37
Consensus pattern (141 bp):
ATTCGAGTTTCAATATTTAAAAATGAAATTGAAAAAATTATAAGACACAAGAACTTCGCTATGCA
TCACATGGTAAATTTCCATTTTAACCTTTTAAAATTTATACTTTATCTTTGATTCCATAACGGAC
TTCGCCTCAAA
Found at i:151436 original size:142 final size:143
Alignment explanation
Indices: 151288--151736 Score: 372
Period size: 134 Copynumber: 3.2 Consensus size: 143
151278 AACCTCGCTG
* *
151288 TGCATCACATTATAAA-TTTCTATTTTAACATCTTAAAAATTTATATTTTATCTTAGATTTTATA
1 TGCATCACATGATAAATTTTC-ATTTTAACATCTTAAAAATTTATATTTTATCTTAGATTTCATA
* * * ** * *
151352 ATGAACTTCGCCTCAAAT-TTTGAG-TTCAATTTTTAAAAATAAAATT-ATAAAAAATCATAAGA
65 ACGAACTTCACCT-AAATAATCAAGTTTCAATATTTAAAAATAAAATTGA-AAAAAATAATAAGA
151414 CACAAGAATTTCACTA
128 CACAAGAATTTCACTA
* * * * *
151430 TGCATCACCTGATAAATTTTCATTTTAACCTCTTAAACATTTATATTTTATCTTTGATTTCGTAA
1 TGCATCACATGATAAATTTTCATTTTAACATCTTAAAAATTTATATTTTATCTTAGATTTCATAA
* *
151495 CGAACTTCACCTTAATAATCAAGTTTCAATATTTAAAAATGAAATTGAAAAAAATAATAAGACAC
66 CGAACTTCACCTAAATAATCAAGTTTCAATATTTAAAAATAAAATTGAAAAAAATAATAAGACAC
151560 AAG-A----ACT-
131 AAGAATTTCACTA
* ** * * * * * **
151567 T-C-GC-CATGGCAAATTTCCATTTTAACCTATTAAATATTTATACTTTATCTTAG-GCTCTATA
1 TGCATCACATGATAAATTTTCATTTTAACATCTTAAAAATTTATATTTTATCTTAGATTTC-ATA
* * * ** * *
151628 ACGGACTTCGCCTCAAA-ATTCGAA-TTTCAATATTTAAAAATGGAATTGTAAAAAATTATAAGA
65 ACGAACTTCACCT-AAATAATC-AAGTTTCAATATTTAAAAATAAAATTGAAAAAAATAATAAGA
* * * *
151691 CATAAAAACTTCGCTA
128 CACAAGAATTTCACTA
* *
151707 TGCATAACATGGTAAAATTTTCATTTTAAC
1 TGCATCACATGAT-AAATTTTCATTTTAAC
151737 CTTTTAAATC
Statistics
Matches: 248, Mismatches: 42, Indels: 32
0.77 0.13 0.10
Matches are distributed among these distances:
133 2 0.01
134 97 0.39
135 6 0.02
136 1 0.00
137 1 0.00
138 3 0.01
139 2 0.01
140 1 0.00
141 4 0.02
142 67 0.27
143 48 0.19
144 16 0.06
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (143 bp):
TGCATCACATGATAAATTTTCATTTTAACATCTTAAAAATTTATATTTTATCTTAGATTTCATAA
CGAACTTCACCTAAATAATCAAGTTTCAATATTTAAAAATAAAATTGAAAAAAATAATAAGACAC
AAGAATTTCACTA
Found at i:151987 original size:143 final size:142
Alignment explanation
Indices: 151820--152219 Score: 468
Period size: 142 Copynumber: 2.8 Consensus size: 142
151810 TAAGAACTCT
* * * *
151820 TCACATAGTAAATTTTTATTTTAACCTCTTAAAAGTTTATACTTTATCTTAGATTTTATAACAAA
1 TCACATGGTAAATTTTCATTTTAACCTCTTAAAAGTTTATACTTTATCTTTGATTCTATAACAAA
* * * * *
151885 CTTCACTTCAAAATTCGAGC-TTCAATATTTGAAAATGATATTTAAAAAAAATCATAAGACA-AA
66 CCTCACGTCAAAATTC-AACTTTCAATATTTAAAAATGA-AATT-AAAAAAATCATAAGACACAA
151948 GAACTTCGCTATGCA
128 GAACTTCGCTATGCA
* * * * *
151963 TCACATGGTAAATTTTCATGTTAACCTCTTATAAGTTTATACTTTATCTTTGATTGTGTAACGAA
1 TCACATGGTAAATTTTCATTTTAACCTCTTAAAAGTTTATACTTTATCTTTGATTCTATAACAAA
* * *
152028 CCTCGCGTCAAAATTCAACTTTCAATATTTAAAAATGAAATTGAAAAAATTATAAGACACAAGAA
66 CCTCACGTCAAAATTCAACTTTCAATATTTAAAAATGAAATTAAAAAAATCATAAGACACAAGAA
*
152093 CTTCGTTATGCA
131 CTTCGCTATGCA
* * * * *
152105 CCACAAGGTAAATTTTCATTTTAATCTCTTAAAAATTTATACTTTATCTTTGATTCTATAACAGA
1 TCACATGGTAAATTTTCATTTTAACCTCTTAAAAGTTTATACTTTATCTTTGATTCTATAACAAA
* * * *
152170 -CT-ACGTCGCAATATTCAAGTTTTAATATTTAAAAAT-AAATTTTAAAAAAT
66 CCTCACGT--CAAAATTCAACTTTCAATATTTAAAAATGAAA-TTAAAAAAAT
152220 ATGATAAAAA
Statistics
Matches: 220, Mismatches: 32, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
140 3 0.01
141 20 0.09
142 110 0.50
143 87 0.40
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (142 bp):
TCACATGGTAAATTTTCATTTTAACCTCTTAAAAGTTTATACTTTATCTTTGATTCTATAACAAA
CCTCACGTCAAAATTCAACTTTCAATATTTAAAAATGAAATTAAAAAAATCATAAGACACAAGAA
CTTCGCTATGCA
Found at i:153018 original size:17 final size:17
Alignment explanation
Indices: 152998--153039 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
152988 CTCCCTTGAC
*
152998 CTTTAACCATTCATCTT
1 CTTTAACCATTCATATT
*
153015 CTTTAACCTTTCATATT
1 CTTTAACCATTCATATT
153032 CTTGTAAC
1 CTT-TAAC
153040 TACTTTTCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.24, C:0.26, G:0.02, T:0.48
Consensus pattern (17 bp):
CTTTAACCATTCATATT
Found at i:153023 original size:24 final size:24
Alignment explanation
Indices: 152978--153025 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
152968 ATGGATGTTC
* *
152978 AACCTTTCATCTCCCTTGACCTTT
1 AACCATTCATCTCCCTTAACCTTT
* *
153002 AACCATTCATCTTCTTTAACCTTT
1 AACCATTCATCTCCCTTAACCTTT
153026 CATATTCTTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.21, C:0.33, G:0.02, T:0.44
Consensus pattern (24 bp):
AACCATTCATCTCCCTTAACCTTT
Found at i:157694 original size:82 final size:82
Alignment explanation
Indices: 157594--157755 Score: 324
Period size: 82 Copynumber: 2.0 Consensus size: 82
157584 AAGTGCTATT
157594 GTGCATTGATGTGTCTTGCTAGTCATACATGACCTAATATATCATTTTTTGTCAACTTATTAGCA
1 GTGCATTGATGTGTCTTGCTAGTCATACATGACCTAATATATCATTTTTTGTCAACTTATTAGCA
157659 AGATTTAACTCTTGTTG
66 AGATTTAACTCTTGTTG
157676 GTGCATTGATGTGTCTTGCTAGTCATACATGACCTAATATATCATTTTTTGTCAACTTATTAGCA
1 GTGCATTGATGTGTCTTGCTAGTCATACATGACCTAATATATCATTTTTTGTCAACTTATTAGCA
157741 AGATTTAACTCTTGT
66 AGATTTAACTCTTGT
157756 CCAACCCGAA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.43
Consensus pattern (82 bp):
GTGCATTGATGTGTCTTGCTAGTCATACATGACCTAATATATCATTTTTTGTCAACTTATTAGCA
AGATTTAACTCTTGTTG
Found at i:161706 original size:33 final size:33
Alignment explanation
Indices: 161664--161727 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
161654 CAAACTTCAA
161664 AAAATTACATAATAATCATTTACATTATCGAGT
1 AAAATTACATAATAATCATTTACATTATCGAGT
* *
161697 AAAATTACATAATAATTATTTATATTATCGA
1 AAAATTACATAATAATCATTTACATTATCGA
161728 ATTATTTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.39
Consensus pattern (33 bp):
AAAATTACATAATAATCATTTACATTATCGAGT
Done.