Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold234
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: 616507
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 3 of 5
Found at i:291167 original size:13 final size:13
Alignment explanation
Indices: 291149--291173 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
291139 ATATTGCTTG
291149 GTATCGATACATT
1 GTATCGATACATT
291162 GTATCGATACAT
1 GTATCGATACAT
291174 GTTGCTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:291171 original size:33 final size:33
Alignment explanation
Indices: 291128--291192 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
291118 CACACCCAAA
*
291128 TGTATTGATACATATTGCTTGGTATCGATACAT
1 TGTATCGATACATATTGCTTGGTATCGATACAT
* *
291161 TGTATCGATACATGTTGCTTTGTATCGATACA
1 TGTATCGATACATATTGCTTGGTATCGATACA
291193 CCATAAAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATATTGCTTGGTATCGATACAT
Found at i:291278 original size:20 final size:20
Alignment explanation
Indices: 291250--291287 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
291240 TGTTTATGAT
*
291250 TGAATTGTATCGATACATGG
1 TGAAATGTATCGATACATGG
291270 TGAAATGTATCGATACAT
1 TGAAATGTATCGATACAT
291288 TGAGCCAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (20 bp):
TGAAATGTATCGATACATGG
Found at i:292976 original size:67 final size:64
Alignment explanation
Indices: 292860--293226 Score: 247
Period size: 65 Copynumber: 5.6 Consensus size: 64
292850 TTCAGATACT
* * * * *
292860 CCTTTTCAACTTAGGTTTCGTCCTAGTCACCATTAATTGACTATTATGGTTTCGCCCTAATCAA
1 CCTTTTTAACTTAAGTTTCGTCCTAGTCACCCTTAGTTGACTATCATGGTTTCGCCCTAATCAA
** * *
292924 CCTATTTTTAGACTTAAGTTTCGTCCTAGTTGCCCTTAGTTGACTACCATGGTTTTGCCCTAATC
1 CC--TTTTTA-ACTTAAGTTTCGTCCTAGTCACCCTTAGTTGACTATCATGGTTTCGCCCTAATC
292989 AA
63 AA
* * * ** * * *
292991 TCCTTTTCAACTT-AGGTTCTGTCTTAGTCATTCTTAGTTGACTATCATGGTTTCACCTTAGTCA
1 -CCTTTTTAACTTAAGTTTC-GTCCTAGTCACCCTTAGTTGACTATCATGGTTTCGCCCTAATCA
293055 A
64 A
* * * * * * * * *
293056 CCCCTTCTTAAACTTAGGTTTTGTCCTAGTTA-CCTTAGTTGACTATTATAGCTTT-ACCTTAGT
1 --CCTT-TTTAACTTAAGTTTCGTCCTAGTCACCCTTAGTTGACTATCAT-GGTTTCGCCCTAAT
*
293119 TAA
62 CAA
* * * * * ** *
293122 CCCTTTTCAACTTAA-TTTCTGTCCTAATCACCCTTAGTTGACTATTATGGCTTCACCCTTGTTA
1 -CCTTTTTAACTTAAGTTTC-GTCCTAGTCACCCTTAGTTGACTATCATGGTTTCGCCCTAATCA
293186 A
64 A
* * *
293187 CCCTTTTTAGACTTAGGTTTTGTCCTAGCCACCCTTAGTT
1 -CCTTTTTA-ACTTAAGTTTCGTCCTAGTCACCCTTAGTT
293227 TATTATGGTT
Statistics
Matches: 243, Mismatches: 46, Indels: 26
0.77 0.15 0.08
Matches are distributed among these distances:
63 3 0.01
64 26 0.11
65 78 0.32
66 61 0.25
67 70 0.29
68 5 0.02
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (64 bp):
CCTTTTTAACTTAAGTTTCGTCCTAGTCACCCTTAGTTGACTATCATGGTTTCGCCCTAATCAA
Found at i:293186 original size:65 final size:66
Alignment explanation
Indices: 292860--293254 Score: 318
Period size: 67 Copynumber: 6.1 Consensus size: 66
292850 TTCAGATACT
* * * **
292860 CCTTTTCAACTTAGGTTTC-GTCCTAGTCACCATTAATTGACTATTATGGTTTCGCCCTAATCAA
1 CCTTTTCAACTTAGGTTTCTGTCCTAGTCACCCTTAGTTGACTATTATGGTTTCACCCTTGTCAA
292924 C
66 C
* * * ** ** ** **
292925 CTATTTTTAGACTTAAGTTTC-GTCCTAGTTGCCCTTAGTTGACTACCATGGTTTTGCCCTAATC
1 C-CTTTTCA-ACTTAGGTTTCTGTCCTAGTCACCCTTAGTTGACTATTATGGTTTCACCCTTGTC
*
292989 AAT
64 AAC
* ** *
292992 CCTTTTCAACTTAGG-TTCTGTCTTAGTCATTCTTAGTTGACTATCATGGTTTCA-CCTTAGTCA
1 CCTTTTCAACTTAGGTTTCTGTCCTAGTCACCCTTAGTTGACTATTATGGTTTCACCCTT-GTCA
293055 ACC
65 A-C
* * *
293058 CCTTCTTAAACTTAGGTTT-TGTCCTAGTTA-CCTTAGTTGACTATTATAGCTTT-A-CCTTAGT
1 CCTT-TTCAACTTAGGTTTCTGTCCTAGTCACCCTTAGTTGACTATTAT-GGTTTCACCCTT-GT
*
293119 TAAC
63 CAAC
* * * *
293123 CCTTTTCAACTTA-ATTTCTGTCCTAATCACCCTTAGTTGACTATTATGGCTTCACCCTTGTTAA
1 CCTTTTCAACTTAGGTTTCTGTCCTAGTCACCCTTAGTTGACTATTATGGTTTCACCCTTGTCAA
293187 C
66 C
* *
293188 CCTTTTTAGACTTAGGTTT-TGTCCTAGCCACCCTTAGTT---TATTATGG-TTCACCC-TGT-A
1 CCTTTTCA-ACTTAGGTTTCTGTCCTAGTCACCCTTAGTTGACTATTATGGTTTCACCCTTGTCA
293246 AC
65 AC
293248 ACCTTTT
1 -CCTTTT
293255 TCTGACCAAG
Statistics
Matches: 273, Mismatches: 42, Indels: 34
0.78 0.12 0.10
Matches are distributed among these distances:
60 3 0.01
61 9 0.03
62 7 0.03
63 11 0.04
64 26 0.10
65 74 0.27
66 66 0.24
67 75 0.27
68 2 0.01
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (66 bp):
CCTTTTCAACTTAGGTTTCTGTCCTAGTCACCCTTAGTTGACTATTATGGTTTCACCCTTGTCAA
C
Found at i:293223 original size:131 final size:131
Alignment explanation
Indices: 292860--293226 Score: 398
Period size: 131 Copynumber: 2.8 Consensus size: 131
292850 TTCAGATACT
* * * **
292860 CCTTTTCAACTTAGGTTTC-GTCCTAGTCACCATTAATTGACTATTATGGTTTCGCCCTAATCAA
1 CCTTTTCAACTTA-GTTTCTGTCCTAGTCACCCTTAGTTGACTATTATGGTTTCACCCTTGTCAA
* * * * * * *
292924 CCTATTTTTAGACTTAAGTTTCGTCCTAGTTGCCCTTAGTTGACTACCATGGTTTTGCCCTAATC
65 CC-CTTTTTAGACTTAGGTTTTGTCCTAGTTACCCTTAGTTGACTACCATAGCTTTACCCTAATC
*
292989 AAT
129 AAC
* * ** *
292992 CCTTTTCAACTTAGGTTCTGTCTTAGTCATTCTTAGTTGACTATCATGGTTTCA-CCTTAGTCAA
1 CCTTTTCAACTTAGTTTCTGTCCTAGTCACCCTTAGTTGACTATTATGGTTTCACCCTT-GTCAA
* * ** * * *
293056 CCCCTTCTTAAACTTAGGTTTTGTCCTAGTTA-CCTTAGTTGACTATTATAGCTTTACCTTAGTT
65 -CCCTTTTTAGACTTAGGTTTTGTCCTAGTTACCCTTAGTTGACTACCATAGCTTTACCCTAATC
293120 AAC
129 AAC
* * * *
293123 CCTTTTCAACTTAATTTCTGTCCTAATCACCCTTAGTTGACTATTATGGCTTCACCCTTGTTAAC
1 CCTTTTCAACTTAGTTTCTGTCCTAGTCACCCTTAGTTGACTATTATGGTTTCACCCTTGTCAAC
**
293188 CCTTTTTAGACTTAGGTTTTGTCCTAGCCACCCTTAGTT
66 CCTTTTTAGACTTAGGTTTTGTCCTAGTTACCCTTAGTT
293227 TATTATGGTT
Statistics
Matches: 192, Mismatches: 38, Indels: 11
0.80 0.16 0.05
Matches are distributed among these distances:
130 27 0.14
131 91 0.47
132 72 0.38
133 2 0.01
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (131 bp):
CCTTTTCAACTTAGTTTCTGTCCTAGTCACCCTTAGTTGACTATTATGGTTTCACCCTTGTCAAC
CCTTTTTAGACTTAGGTTTTGTCCTAGTTACCCTTAGTTGACTACCATAGCTTTACCCTAATCAA
C
Found at i:293319 original size:5 final size:5
Alignment explanation
Indices: 293309--293333 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
293299 TATATATTTA
293309 GTTTT GTTTT GTTTT GTTTT GTTTT
1 GTTTT GTTTT GTTTT GTTTT GTTTT
293334 TCAAAATCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (5 bp):
GTTTT
Found at i:293903 original size:19 final size:19
Alignment explanation
Indices: 293857--294006 Score: 129
Period size: 19 Copynumber: 8.7 Consensus size: 19
293847 TTTCAACAAT
*
293857 TTGTATCGATACAAATAGTAA
1 TTGTATCGATACAAA-AGT-G
*
293878 ATGTATCGATACAAAAGTG
1 TTGTATCGATACAAAAGTG
293897 TTGTATCGATAC--AA---
1 TTGTATCGATACAAAAGTG
293911 -TGTATCGATACAAAAGTG
1 TTGTATCGATACAAAAGTG
293929 TTGTATCGATAC--AA---
1 TTGTATCGATACAAAAGTG
293943 -TGTATCGATACAAAAGTG
1 TTGTATCGATACAAAAGTG
293961 TTGTATCGATAC--AA---
1 TTGTATCGATACAAAAGTG
293975 -TGTATCGATACAAAAGTG
1 TTGTATCGATACAAAAGTG
*
293993 TTGTATAGATACAA
1 TTGTATCGATACAA
294007 CTACCCTGCA
Statistics
Matches: 107, Mismatches: 4, Indels: 38
0.72 0.03 0.26
Matches are distributed among these distances:
13 33 0.31
15 6 0.06
17 6 0.06
19 45 0.42
20 3 0.03
21 14 0.13
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.31
Consensus pattern (19 bp):
TTGTATCGATACAAAAGTG
Found at i:293916 original size:13 final size:13
Alignment explanation
Indices: 293898--293987 Score: 72
Period size: 13 Copynumber: 6.0 Consensus size: 13
293888 ACAAAAGTGT
293898 TGTATCGATACAA
1 TGTATCGATACAA
293911 TGTATCGATACAAAA
1 TGTATCGATAC--AA
293926 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
293943 TGTATCGATACAAAA
1 TGTATCGATAC--AA
293958 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
293975 TGTATCGATACAA
1 TGTATCGATACAA
293988 AAGTGTTGTA
Statistics
Matches: 65, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 35 0.54
15 4 0.06
17 4 0.06
19 22 0.34
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:293918 original size:32 final size:32
Alignment explanation
Indices: 293877--294006 Score: 251
Period size: 32 Copynumber: 4.1 Consensus size: 32
293867 ACAAATAGTA
293877 AATGTATCGATACAAAAGTGTTGTATCGATAC
1 AATGTATCGATACAAAAGTGTTGTATCGATAC
293909 AATGTATCGATACAAAAGTGTTGTATCGATAC
1 AATGTATCGATACAAAAGTGTTGTATCGATAC
293941 AATGTATCGATACAAAAGTGTTGTATCGATAC
1 AATGTATCGATACAAAAGTGTTGTATCGATAC
*
293973 AATGTATCGATACAAAAGTGTTGTATAGATAC
1 AATGTATCGATACAAAAGTGTTGTATCGATAC
294005 AA
1 AA
294007 CTACCCTGCA
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 97 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (32 bp):
AATGTATCGATACAAAAGTGTTGTATCGATAC
Found at i:295031 original size:21 final size:22
Alignment explanation
Indices: 294993--295033 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
294983 TCATGTTAAC
*
294993 AGCTCATGATTCATGCATTTTG
1 AGCTCATGATTCACGCATTTTG
*
295015 AGCT-ATGTTTCACGCATTT
1 AGCTCATGATTCACGCATTT
295034 ACAGCATGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (22 bp):
AGCTCATGATTCACGCATTTTG
Found at i:298352 original size:60 final size:63
Alignment explanation
Indices: 298233--298361 Score: 192
Period size: 60 Copynumber: 2.1 Consensus size: 63
298223 AATTTTTATT
* * * *
298233 ATTTTCTTTGCTTTTAAGGTATAAATTCTTTAAAAAAAATCTTTAATTTTTGTTTATTTCATTG
1 ATTTTCTTTACTTTTAAGGTATAAATTCTTT-AAAAAAATATTTAATTTTTGTTCATTTCATTC
298297 ATTTTCTTTAC-TTTAAGGTATAAATTC-TT-AAAAAATATTTAATTTTTGTTCATTTCATTC
1 ATTTTCTTTACTTTTAAGGTATAAATTCTTTAAAAAAATATTTAATTTTTGTTCATTTCATTC
298357 ATTTT
1 ATTTT
298362 GAGTTTGGTA
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
60 33 0.54
62 2 0.03
63 16 0.26
64 10 0.16
ACGTcount: A:0.30, C:0.09, G:0.06, T:0.55
Consensus pattern (63 bp):
ATTTTCTTTACTTTTAAGGTATAAATTCTTTAAAAAAATATTTAATTTTTGTTCATTTCATTC
Found at i:300342 original size:2 final size:2
Alignment explanation
Indices: 300335--300359 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
300325 ATGACTCTTA
300335 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
300360 AAATAGTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:301057 original size:2 final size:2
Alignment explanation
Indices: 301050--301091 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
301040 CCATACTCTA
*
301050 AT AT AT AT AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
301092 TAGAATATGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:301396 original size:24 final size:23
Alignment explanation
Indices: 301369--301443 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 23
301359 ATTATGCAAG
301369 CATTCTTTAAGTAATGACACCAAT
1 CATTCTTTAA-TAATGACACCAAT
* * * *
301393 CATTGCATTCATATAT-ATA-CAAG
1 CATT-CTTTAATA-ATGACACCAAT
301416 CATTCTTTAACTAATGACACCAAT
1 CATTCTTTAA-TAATGACACCAAT
301440 CATT
1 CATT
301444 GCATTCATAT
Statistics
Matches: 38, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
22 6 0.16
23 11 0.29
24 15 0.39
25 6 0.16
ACGTcount: A:0.37, C:0.21, G:0.07, T:0.35
Consensus pattern (23 bp):
CATTCTTTAATAATGACACCAAT
Found at i:301434 original size:47 final size:47
Alignment explanation
Indices: 301365--301458 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
301355 ATGAATTATG
*
301365 CAAGCATTCTTTAAGTAATGACACCAATCATTGCATTCATATATATA
1 CAAGCATTCTTTAACTAATGACACCAATCATTGCATTCATATATATA
301412 CAAGCATTCTTTAACTAATGACACCAATCATTGCATTCATATATATA
1 CAAGCATTCTTTAACTAATGACACCAATCATTGCATTCATATATATA
301459 TATATATATA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.34
Consensus pattern (47 bp):
CAAGCATTCTTTAACTAATGACACCAATCATTGCATTCATATATATA
Found at i:301457 original size:2 final size:2
Alignment explanation
Indices: 301450--301501 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
301440 CATTGCATTC
301450 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
301492 AT AT AT AT AT
1 AT AT AT AT AT
301502 CTTAGTGTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:303784 original size:15 final size:13
Alignment explanation
Indices: 303756--303789 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
303746 TTGTTTAGAG
303756 ATAATTTTAAAAT
1 ATAATTTTAAAAT
303769 ATAATTATTAAAA-
1 ATAATT-TTAAAAT
303782 ATAATTTT
1 ATAATTTT
303790 TTGTTATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 2 0.10
13 12 0.60
14 6 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
ATAATTTTAAAAT
Found at i:307468 original size:2 final size:2
Alignment explanation
Indices: 307461--307487 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
307451 TTTATGGACA
307461 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
307488 AATAGAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:307496 original size:2 final size:2
Alignment explanation
Indices: 307491--307528 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
307481 ATATATAAAT
307491 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
307529 GCATTAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:311114 original size:52 final size:52
Alignment explanation
Indices: 311029--311153 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
311019 ATATGAAAAG
* *
311029 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
311081 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
311133 TTGCCTACATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
311154 AAGATCAATG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:311164 original size:52 final size:52
Alignment explanation
Indices: 311036--311173 Score: 190
Period size: 52 Copynumber: 2.7 Consensus size: 52
311026 AAGTTGCTTG
* * *
311036 CATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAATTTGCCTG
1 CATGTATCGATACA-TAAGATAATGTATCGATACATCTGGGCAAATTTGCCTA
***
311088 CATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCCTA
1 CATGTATCGATACATAAGATAATGTATCGATACATCTGGGCAAATTTGCCTA
311140 CATGTATCGATACA-AAGATCAATGTATCGATACA
1 CATGTATCGATACATAAGAT-AATGTATCGATACA
311174 ATGTATCGAT
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
51 4 0.05
52 74 0.95
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (52 bp):
CATGTATCGATACATAAGATAATGTATCGATACATCTGGGCAAATTTGCCTA
Found at i:311177 original size:13 final size:13
Alignment explanation
Indices: 311159--311186 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
311149 ATACAAAGAT
311159 CAATGTATCGATA
1 CAATGTATCGATA
311172 CAATGTATCGATA
1 CAATGTATCGATA
311185 CA
1 CA
311187 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:316024 original size:22 final size:20
Alignment explanation
Indices: 315997--316042 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 20
315987 GGGTTATGGA
*
315997 AAAGGGAAAATGAAAGAAAAAG
1 AAAGGGAAAA-AAAAG-AAAAG
316019 AAAGGGAAAAAAAAGAAAAG
1 AAAGGGAAAAAAAAGAAAAG
316039 AAAG
1 AAAG
316043 ATTTCGATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.39
21 4 0.17
22 10 0.43
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (20 bp):
AAAGGGAAAAAAAAGAAAAG
Found at i:316070 original size:27 final size:29
Alignment explanation
Indices: 316025--316099 Score: 82
Period size: 28 Copynumber: 2.6 Consensus size: 29
316015 AAAGAAAGGG
*
316025 AAAAAAAAGAAAAGAAAG-ATTTCGATTT
1 AAAAAAAAGAAAAGAAAGAATTTAGATTT
* * *
316053 AAAATAAAGAAAA-TAAGAATTTAGGTTT
1 AAAAAAAAGAAAAGAAAGAATTTAGATTT
316081 AAAAAAAAAAGAAAAGAAA
1 --AAAAAAAAGAAAAGAAA
316100 AGATATAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
27 3 0.08
28 20 0.54
30 12 0.32
31 2 0.05
ACGTcount: A:0.67, C:0.01, G:0.13, T:0.19
Consensus pattern (29 bp):
AAAAAAAAGAAAAGAAAGAATTTAGATTT
Found at i:317423 original size:13 final size:13
Alignment explanation
Indices: 317405--317429 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
317395 ACATAAGTGT
317405 TGTATCGATACAA
1 TGTATCGATACAA
317418 TGTATCGATACA
1 TGTATCGATACA
317430 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:317456 original size:32 final size:32
Alignment explanation
Indices: 317386--317456 Score: 106
Period size: 32 Copynumber: 2.2 Consensus size: 32
317376 TTCAACGATT
*
317386 TGTATCAATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* * *
317418 TGTATCGATACATAAGTTTTGTGTTGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
317450 TGTATCG
1 TGTATCG
317457 CTACGAAGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:317519 original size:13 final size:13
Alignment explanation
Indices: 317501--317525 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
317491 ATTACTCAAA
317501 TGTATCGATACAT
1 TGTATCGATACAT
317514 TGTATCGATACA
1 TGTATCGATACA
317526 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:317578 original size:52 final size:52
Alignment explanation
Indices: 317534--317662 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
317524 CACTGATCTT
317534 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
317586 TGTATCGATACATGCGGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
317638 TGTATCGATATATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
317663 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:318511 original size:21 final size:21
Alignment explanation
Indices: 318485--318537 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
318475 CAGCCCATGA
318485 TTCATGCATTTTGAGCTATGC
1 TTCATGCATTTTGAGCTATGC
318506 TTCATGCATTTTGAGCTATGC
1 TTCATGCATTTTGAGCTATGC
318527 TTCATGCATTT
1 TTCATGCATTT
318538 ATGGCATGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.19, C:0.19, G:0.17, T:0.45
Consensus pattern (21 bp):
TTCATGCATTTTGAGCTATGC
Found at i:329141 original size:13 final size:13
Alignment explanation
Indices: 329123--329147 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
329113 CATAAAGTGT
329123 TGTATCGATACAA
1 TGTATCGATACAA
329136 TGTATCGATACA
1 TGTATCGATACA
329148 TATTTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:329229 original size:13 final size:13
Alignment explanation
Indices: 329211--329235 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
329201 ATCACTTAAA
329211 TGTATCGATACAT
1 TGTATCGATACAT
329224 TGTATCGATACA
1 TGTATCGATACA
329236 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:329300 original size:52 final size:52
Alignment explanation
Indices: 329244--329372 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
329234 CACTGATCTT
* *
329244 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
329296 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
329348 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
329373 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:335025 original size:19 final size:18
Alignment explanation
Indices: 335003--335117 Score: 92
Period size: 18 Copynumber: 6.1 Consensus size: 18
334993 GGCGTCCTCT
*
335003 ACAAAAAAAAACCAAATAA
1 ACAAAAAAAAAACAAA-AA
*
335022 ACAAAAAAAAAGATGAAAAAA
1 ACAAAAAAAAA-A--CAAAAA
335043 ACAAAAAAAAAACAAAAA
1 ACAAAAAAAAAACAAAAA
335061 ACAAAAAACAAAA-AACAAA
1 ACAAAAAA-AAAACAA-AAA
*
335080 A-AAACAAAGAAA-AAAAA
1 ACAAA-AAAAAAACAAAAA
*
335097 ACAAAAACAACAACAATAAA
1 ACAAAAA-AAAAACAA-AAA
335117 A
1 A
335118 AGGGTCCGGA
Statistics
Matches: 80, Mismatches: 6, Indels: 19
0.76 0.06 0.18
Matches are distributed among these distances:
17 6 0.08
18 29 0.36
19 24 0.30
20 5 0.06
21 13 0.16
22 3 0.04
ACGTcount: A:0.83, C:0.12, G:0.03, T:0.03
Consensus pattern (18 bp):
ACAAAAAAAAAACAAAAA
Found at i:335047 original size:40 final size:40
Alignment explanation
Indices: 335003--335106 Score: 129
Period size: 40 Copynumber: 2.5 Consensus size: 40
334993 GGCGTCCTCT
* * **
335003 ACAAAAAAAAACCAAATAAACAAAAAA-AAAGATGAAAAAA
1 ACAAAAAAAAAACAAA-AAACAAAAAACAAAAAACAAAAAA
335043 ACAAAAAAAAAACAAAAAACAAAAAACAAAAAACAAAAAA
1 ACAAAAAAAAAACAAAAAACAAAAAACAAAAAACAAAAAA
*
335083 ACAAAGAAAAAAAAACAAAAACAA
1 ACAAA-AAAAAAACA-AAAAACAA
335107 CAACAATAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
39 10 0.18
40 30 0.54
41 8 0.14
42 8 0.14
ACGTcount: A:0.84, C:0.12, G:0.03, T:0.02
Consensus pattern (40 bp):
ACAAAAAAAAAACAAAAAACAAAAAACAAAAAACAAAAAA
Found at i:335056 original size:32 final size:32
Alignment explanation
Indices: 335003--335097 Score: 97
Period size: 32 Copynumber: 2.9 Consensus size: 32
334993 GGCGTCCTCT
* * *
335003 ACAAAAAA-AAACCAAATAAACAAAAAAAAAGATG
1 ACAAAAAACAAA-AAAACAAACAAAAAAAAA-A-A
335037 A-AAAAAACAAAAAAA-AAACAAAAAACAAAAA
1 ACAAAAAACAAAAAAACAAACAAAAAA-AAAAA
*
335068 ACAAAAAACAAAAAAACAAAGAAAAAAAAA
1 ACAAAAAACAAAAAAACAAACAAAAAAAAA
335098 CAAAAACAAC
Statistics
Matches: 54, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
31 1 0.02
32 28 0.52
33 21 0.39
34 4 0.07
ACGTcount: A:0.84, C:0.11, G:0.03, T:0.02
Consensus pattern (32 bp):
ACAAAAAACAAAAAAACAAACAAAAAAAAAAA
Found at i:335084 original size:29 final size:28
Alignment explanation
Indices: 335009--335103 Score: 101
Period size: 29 Copynumber: 3.4 Consensus size: 28
334999 CTCTACAAAA
* *
335009 AAAAACCAAATAAACAAAAAA-AAAGATGA
1 AAAAAACAAA-AAACAAAAAACAAAGA-AA
335038 AAAAAAC--AAAA-AAAAAACAAA-AAA
1 AAAAAACAAAAAACAAAAAACAAAGAAA
335062 CAAAAAACAAAAAACAAAAAAACAAAGAAA
1 -AAAAAACAAAAAAC-AAAAAACAAAGAAA
335092 AAAAAACAAAAA
1 AAAAAACAAAAA
335104 CAACAACAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
24 1 0.02
25 14 0.25
26 6 0.11
27 5 0.09
29 28 0.49
30 3 0.05
ACGTcount: A:0.84, C:0.11, G:0.03, T:0.02
Consensus pattern (28 bp):
AAAAAACAAAAAACAAAAAACAAAGAAA
Found at i:335096 original size:22 final size:21
Alignment explanation
Indices: 335005--335118 Score: 117
Period size: 22 Copynumber: 5.4 Consensus size: 21
334995 CGTCCTCTAC
* *
335005 AAAAAAAAACCAAATAAACAA
1 AAAAAAAAAACAAAAAAACAA
* **
335026 AAAAAAAGATGAAAAAAAC--
1 AAAAAAAAAACAAAAAAACAA
335045 AAAAAAAAAAC-AAAAAACAA
1 AAAAAAAAAACAAAAAAACAA
335065 AAAACAAAAAACAAAAAAACAA
1 AAAA-AAAAAACAAAAAAACAA
335087 AGAAAAAAAAACAAAAACAACAA
1 A-AAAAAAAAACAAAAA-AACAA
* *
335110 CAATAAAAA
1 AAAAAAAAA
335119 GGGTCCGGAT
Statistics
Matches: 78, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
18 7 0.09
19 8 0.10
20 4 0.05
21 22 0.28
22 29 0.37
23 8 0.10
ACGTcount: A:0.83, C:0.11, G:0.03, T:0.03
Consensus pattern (21 bp):
AAAAAAAAAACAAAAAAACAA
Found at i:335104 original size:6 final size:6
Alignment explanation
Indices: 335039--335112 Score: 66
Period size: 6 Copynumber: 12.3 Consensus size: 6
335029 AAAAGATGAA
335039 AAAAAC AAAAA- AAAAAC AAAAAAC AAAAAAC AAAAAAC AAAAA- AACAAA-
1 AAAAAC AAAAAC AAAAAC -AAAAAC -AAAAAC -AAAAAC AAAAAC AA-AAAC
* *
335088 GAAAA- AAAAAC AAAAAC AACAAC AA
1 AAAAAC AAAAAC AAAAAC AAAAAC AA
335113 TAAAAAGGGT
Statistics
Matches: 61, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
5 14 0.23
6 27 0.44
7 20 0.33
ACGTcount: A:0.85, C:0.14, G:0.01, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:335118 original size:1 final size:1
Alignment explanation
Indices: 335005--335103 Score: 63
Period size: 1 Copynumber: 99.0 Consensus size: 1
334995 CGTCCTCTAC
** * * * ** * * * *
335005 AAAAAAAAACCAAATAAACAAAAAAAAAGATGAAAAAAACAAAAAAAAAACAAAAAACAAAAAAC
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *
335070 AAAAAACAAAAAAACAAAGAAAAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
335104 CAACAACAAT
Statistics
Matches: 71, Mismatches: 27, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 71 1.00
ACGTcount: A:0.85, C:0.10, G:0.03, T:0.02
Consensus pattern (1 bp):
A
Found at i:336618 original size:28 final size:28
Alignment explanation
Indices: 336549--336903 Score: 372
Period size: 28 Copynumber: 12.4 Consensus size: 28
336539 CACCTTTTCC
* * * *
336549 AAAGCTCACAAGTCCGTGGCATCCTTTCC
1 AAAGCCCACAAGTCAGTGGCAACC-TTCA
336578 AAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
*
336606 AAAGCCCACAAGTCAGTGGC-ACCTTTTTCC
1 AAAGCCCACAAGTCAGTGGCAACC---TTCA
*
336636 AAAGCCCACAAGTCAGTGGCAACCTTCC
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
*
336664 AAAGCCTACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
* *
336692 AAAGCCCACAAGTCAGTGGCACCCTTTTCT
1 AAAGCCCACAAGTCAGTGGCAACC--TTCA
*
336722 AAAGCCCACAAGTCAGTGGCAACCTTCC
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
* * *
336750 AAAGCCTACAAATCAGTGGCAACCTTCG
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
* *
336778 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCAACC--TTCA
* *
336808 AAAGCCCATAAGTTAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
* * * *
336836 AAAGCCCACAAGTTAGTGGTATCTTTTCA
1 AAAGCCCACAAGTCAGTGGCAAC-CTTCA
* ** *
336865 AAAGCACACAAGTTGGT-GCAACCCTATTA
1 AAAGCCCACAAGTCAGTGGCAA-CCT-TCA
336894 AAAGCCCACA
1 AAAGCCCACA
336904 CAAGTTGGTG
Statistics
Matches: 281, Mismatches: 34, Indels: 22
0.83 0.10 0.07
Matches are distributed among these distances:
27 3 0.01
28 150 0.53
29 52 0.19
30 73 0.26
31 3 0.01
ACGTcount: A:0.32, C:0.31, G:0.17, T:0.20
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCAACCTTCA
Found at i:336649 original size:58 final size:56
Alignment explanation
Indices: 336549--336903 Score: 401
Period size: 58 Copynumber: 6.2 Consensus size: 56
336539 CACCTTTTCC
* *
336549 AAAGCTCACAAGTCCGTGGCATCCTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCA-CCTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
*
336606 AAAGCCCACAAGTCAGTGGCACCTTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCC
1 AAAGCCCACAAGTCAGTGGCACC--TTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* * * *
336664 AAAGCCTACAAGTCAGTGGCAACC-TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCT
1 AAAGCCCACAAGTCAGTGGC-ACCTTTCCAAAGCCCACAAGTCAGTGGCAACC--TTCA
* * *
336722 AAAGCCCACAAGTCAGTGGCAACC-TTCCAAAGCCTACAAATCAGTGGCAACCTTCG
1 AAAGCCCACAAGTCAGTGGC-ACCTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* *
336778 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCATAAGTTAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCA-CC-TTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* * * * * ** *
336836 AAAGCCCACAAGTTAGTGGTATCTTTTCAAAAGCACACAAGTTGGT-GCAACCCTATTA
1 AAAGCCCACAAGTCAGTGGCA-CCTTTCCAAAGCCCACAAGTCAGTGGCAA-CCT-TCA
336894 AAAGCCCACA
1 AAAGCCCACA
336904 CAAGTTGGTG
Statistics
Matches: 261, Mismatches: 27, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
55 1 0.00
56 57 0.22
57 40 0.15
58 160 0.61
59 3 0.01
ACGTcount: A:0.32, C:0.31, G:0.17, T:0.20
Consensus pattern (56 bp):
AAAGCCCACAAGTCAGTGGCACCTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
Found at i:336684 original size:86 final size:86
Alignment explanation
Indices: 336541--336877 Score: 503
Period size: 86 Copynumber: 3.9 Consensus size: 86
336531 ACATTCCTCA
* * *
336541 CCTTTTCCAAAGCTCACAAGTCCGTGGCATCCTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
1 CCTTTTCCAAAGCCCACAAGTCAGTGGCAACC-TTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
336606 AAAGCCCACAAGTCAGTGGCAC
65 AAAGCCCACAAGTCAGTGGCAC
* *
336628 CTTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCCAAAGCCTACAAGTCAGTGGCAACCTTCAA
1 CCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAA
336693 AAGCCCACAAGTCAGTGGCAC
66 AAGCCCACAAGTCAGTGGCAC
* * * *
336714 CCTTTTCTAAAGCCCACAAGTCAGTGGCAACCTTCCAAAGCCTACAAATCAGTGGCAACCTTCGA
1 CCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAA
336779 AAGCCCACAAGTCAGTGGCAC
66 AAGCCCACAAGTCAGTGGCAC
* * * * * * *
336800 CCTTTTCCAAAGCCCATAAGTTAGTGGCAACCTTCAAAAGCCCACAAGTTAGTGGTATCTTTTCA
1 CCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCCAAAGCCCACAAGTCAGTGGCAAC-CTTCA
*
336865 AAAGCACACAAGT
65 AAAGCCCACAAGT
336878 TGGTGCAACC
Statistics
Matches: 228, Mismatches: 21, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
86 185 0.81
87 43 0.19
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.20
Consensus pattern (86 bp):
CCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAA
AAGCCCACAAGTCAGTGGCAC
Found at i:336980 original size:49 final size:49
Alignment explanation
Indices: 336926--337199 Score: 301
Period size: 49 Copynumber: 5.7 Consensus size: 49
336916 ATCTTCTTCC
*
336926 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCGTCATCTTT
** *
336975 AAGTCCAAGGTCGCTGGCCTTGAATCAGCACATT-G-A----CACCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCGTCATCTTT
* *
337018 AAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCGTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCGTCATCTTT
* * * * * *
337067 AAGACCCATGTCGTTGGCCTTGAATCAGCACATTGGCATCTTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCGTCATCTTT
** * * * *
337116 AAGTCCGGTATCGCTAGCTTTGAATCAACATATTGGCACCGTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCGTCATCTTT
* * *
337165 AAGAT-CAATGTCGCTGGCCATGAATTAGCACATTG
1 AAG-TCCAATATCGCTGGCCTTGAATCAGCACATTG
337200 TCATTCTTCG
Statistics
Matches: 181, Mismatches: 37, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
43 36 0.20
44 1 0.01
45 1 0.01
47 1 0.01
48 1 0.01
49 140 0.77
50 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (49 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCGTCATCTTT
Found at i:337161 original size:98 final size:98
Alignment explanation
Indices: 336926--337208 Score: 389
Period size: 98 Copynumber: 2.9 Consensus size: 98
336916 ATCTTCTTCC
* * *
336926 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAGTCCAAGGTCGCTG
1 AAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCGTCATCTTTAAGACCAATGTCGCTG
336991 GCCTTGAATCAGCACATT-G-A----CACCTTT
66 GCCTTGAATCAGCACATTGGCATCTTCACCTTT
* *
337018 AAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCGTCATCTTTAAGACCCATGTCGTTG
1 AAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCGTCATCTTTAAGACCAATGTCGCTG
*
337083 GCCTTGAATCAGCACATTGGCATCTTCATCTTT
66 GCCTTGAATCAGCACATTGGCATCTTCACCTTT
** * * *
337116 AAGTCCGGTATCGCTAGCTTTGAATCAACATATTGGCACCGTCATCTTTAAGATCAATGTCGCTG
1 AAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCGTCATCTTTAAGACCAATGTCGCTG
* * *
337181 GCCATGAATTAGCACATTGTCATTCTTC
66 GCCTTGAATCAGCACATTGGCA-TCTTC
337209 GTATCTTCGA
Statistics
Matches: 168, Mismatches: 16, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
92 78 0.46
93 1 0.01
94 1 0.01
98 83 0.49
99 5 0.03
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (98 bp):
AAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCGTCATCTTTAAGACCAATGTCGCTG
GCCTTGAATCAGCACATTGGCATCTTCACCTTT
Found at i:338055 original size:52 final size:52
Alignment explanation
Indices: 337967--338118 Score: 241
Period size: 52 Copynumber: 2.9 Consensus size: 52
337957 GTATTGATAC
* *
337967 AATGTATCGATACATTACTCAAATGTATCGATACATGCAGGCAAATTTGCCCA
1 AATGTATCGATACACTA-TAAAATGTATCGATACATGCAGGCAAATTTGCCCA
* *
338020 GATGTATCGATACACTATAAAATGTATCGATACATGCGGGCAAATTTGCCCA
1 AATGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAATTTGCCCA
* *
338072 AATGTATCGATACACTATGAAATGTATCGATACATTCAGGCAAATTT
1 AATGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAATTT
338119 TCATATTTCG
Statistics
Matches: 91, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
52 76 0.84
53 15 0.16
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.29
Consensus pattern (52 bp):
AATGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAATTTGCCCA
Found at i:341719 original size:22 final size:23
Alignment explanation
Indices: 341677--341719 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
341667 AAATTTCAGC
* *
341677 AATTGTAAAATTTCATTTTTAAT
1 AATTCTAAAAATTCATTTTTAAT
341700 AATTCTAAAAATT-ATTTTTA
1 AATTCTAAAAATTCATTTTTA
341720 GCCAATAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (23 bp):
AATTCTAAAAATTCATTTTTAAT
Found at i:342282 original size:2 final size:2
Alignment explanation
Indices: 342275--342308 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
342265 CTTGAATCGG
* *
342275 AT AT AT AT AT AT AT GT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
342309 GAGATACTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:342295 original size:14 final size:14
Alignment explanation
Indices: 342276--342308 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
342266 TTGAATCGGA
342276 TATATATATATATG
1 TATATATATATATG
342290 TATATATATATATG
1 TATATATATATATG
342304 TATAT
1 TATAT
342309 GAGATACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
TATATATATATATG
Found at i:344050 original size:23 final size:23
Alignment explanation
Indices: 344023--344073 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
344013 TTAAAAATTT
*
344023 ATTTTTAT-ATTAATATTTATAT-
1 ATTTTTATAATTAA-ATTTAAATA
344045 ATTTTTATAATTAAATTTAAATA
1 ATTTTTATAATTAAATTTAAATA
344068 ATTTTT
1 ATTTTT
344074 TTTAATCAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 15 0.58
23 11 0.42
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
ATTTTTATAATTAAATTTAAATA
Found at i:347980 original size:13 final size:13
Alignment explanation
Indices: 347922--347990 Score: 50
Period size: 15 Copynumber: 4.8 Consensus size: 13
347912 TATTTAAAAT
347922 TATTTTAATTTTATA
1 TATTTT-ATTTT-TA
347937 TATTTTATGTGATTTA
1 TATTTTAT-T--TTTA
347953 TATTGTT-TTAATTTA
1 TATT-TTATT--TTTA
*
347968 TTTTTTATTTTTA
1 TATTTTATTTTTA
347981 TATTTTATTT
1 TATTTTATTT
347991 ATTTAAATTG
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
13 13 0.28
14 4 0.09
15 18 0.39
16 7 0.15
17 4 0.09
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (13 bp):
TATTTTATTTTTA
Found at i:348352 original size:3 final size:3
Alignment explanation
Indices: 348346--348372 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
348336 ATTAAAATCA
348346 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
348373 TTATTTTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:349063 original size:29 final size:31
Alignment explanation
Indices: 349022--349086 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
349012 TTTTATATAG
* *
349022 ATCAC-AAATTTTTAACT-TTATTAAATTAC
1 ATCACTAAATTTTTAACTATTAATAAATTAA
*
349051 ATCACTAAATTTTT-CCTATTAATAAATTAA
1 ATCACTAAATTTTTAACTATTAATAAATTAA
349081 ATCACT
1 ATCACT
349087 TATATTATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.43
Consensus pattern (31 bp):
ATCACTAAATTTTTAACTATTAATAAATTAA
Found at i:350777 original size:19 final size:18
Alignment explanation
Indices: 350728--350777 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 18
350718 AATAAAAAAT
*
350728 TAAAAAT-AGATAA-AGA
1 TAAAAATCAAATAAGAGA
* *
350744 TAAAAATTAATTAAGAGA
1 TAAAAATCAAATAAGAGA
350762 TAGAAAATCAAATAAG
1 TA-AAAATCAAATAAG
350778 TATGTATAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 7 0.26
17 4 0.15
18 5 0.19
19 11 0.41
ACGTcount: A:0.64, C:0.02, G:0.12, T:0.22
Consensus pattern (18 bp):
TAAAAATCAAATAAGAGA
Found at i:352346 original size:20 final size:20
Alignment explanation
Indices: 352321--352372 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
352311 TTAGGCACAG
* *
352321 TGTATCGATACATTTTACTA
1 TGTATCGATACATTGTACCA
* *
352341 TGTATCAATACATTGTCCCA
1 TGTATCGATACATTGTACCA
352361 TGTATCGATACA
1 TGTATCGATACA
352373 AATAGTGATA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATTGTACCA
Found at i:361075 original size:20 final size:20
Alignment explanation
Indices: 361050--361104 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
361040 AAAAAAACAG
361050 AATGTATCGATACATTAAAA
1 AATGTATCGATACATTAAAA
*
361070 AATGTATCGATACATTGAAA
1 AATGTATCGATACATTAAAA
361090 AATGTATCGATACAT
1 AATGTATCGATACAT
361105 CTGGGTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (20 bp):
AATGTATCGATACATTAAAA
Found at i:363897 original size:20 final size:20
Alignment explanation
Indices: 363872--363924 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
363862 CTGGGCACAG
* * *
363872 TGTATCGATACATTTTACTA
1 TGTATCGATACAATGTACCA
*
363892 TGTATCGATACAATGTCCCA
1 TGTATCGATACAATGTACCA
363912 TGTATCGATACAA
1 TGTATCGATACAA
363925 ATAGTGATAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (20 bp):
TGTATCGATACAATGTACCA
Found at i:363976 original size:20 final size:20
Alignment explanation
Indices: 363951--364008 Score: 116
Period size: 20 Copynumber: 2.9 Consensus size: 20
363941 TACTGCCAGT
363951 TTCATGTATCGATACAATTC
1 TTCATGTATCGATACAATTC
363971 TTCATGTATCGATACAATTC
1 TTCATGTATCGATACAATTC
363991 TTCATGTATCGATACAAT
1 TTCATGTATCGATACAAT
364009 AAGCATGTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.40
Consensus pattern (20 bp):
TTCATGTATCGATACAATTC
Found at i:364032 original size:13 final size:13
Alignment explanation
Indices: 364014--364038 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
364004 ACAATAAGCA
364014 TGTATCGATACAT
1 TGTATCGATACAT
364027 TGTATCGATACA
1 TGTATCGATACA
364039 AAGCAATATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:365299 original size:13 final size:13
Alignment explanation
Indices: 365281--365305 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
365271 CATTACGCTT
365281 TGTATCGATACAA
1 TGTATCGATACAA
365294 TGTATCGATACA
1 TGTATCGATACA
365306 TGTTCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:365336 original size:20 final size:20
Alignment explanation
Indices: 365290--365346 Score: 82
Period size: 19 Copynumber: 3.0 Consensus size: 20
365280 TTGTATCGAT
*
365290 ACAA-TGTATCGATACATGT
1 ACAATTGTATCGATACATGG
*
365309 TC-ATTGTATCGATACATGG
1 ACAATTGTATCGATACATGG
365328 ACAATTGTATCGATACATG
1 ACAATTGTATCGATACATG
365347 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 1 0.03
19 16 0.48
20 16 0.48
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (20 bp):
ACAATTGTATCGATACATGG
Found at i:371674 original size:21 final size:22
Alignment explanation
Indices: 371650--371699 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
371640 ACCAAATCTT
* *
371650 CTTCAAATTTCTT-ATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
371671 CTTCAAAATACTTCATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
371693 --TCAAAAT
1 CTTCAAAAT
371700 CATCAACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 7 0.27
21 11 0.42
22 8 0.31
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (22 bp):
CTTCAAAATACTTCATTTTTCA
Found at i:372006 original size:20 final size:22
Alignment explanation
Indices: 371973--372017 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
371963 GCAGCCACCT
*
371973 CCAGGTCGCGATC-GGTA-CTC
1 CCAGGTCGCAATCGGGTAGCTC
*
371993 CCAGGTCGTAATCGGGTAGCTC
1 CCAGGTCGCAATCGGGTAGCTC
372015 CCA
1 CCA
372018 CACCCACTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.52
21 4 0.19
22 6 0.29
ACGTcount: A:0.18, C:0.33, G:0.29, T:0.20
Consensus pattern (22 bp):
CCAGGTCGCAATCGGGTAGCTC
Found at i:373511 original size:19 final size:19
Alignment explanation
Indices: 373487--373554 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
373477 AATTCAACAA
373487 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
373506 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
373521 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
373538 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
373555 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:373526 original size:13 final size:13
Alignment explanation
Indices: 373508--373532 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
373498 ACATAAGTTT
373508 TGTATCGATACAA
1 TGTATCGATACAA
373521 TGTATCGATACA
1 TGTATCGATACA
373533 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:373530 original size:32 final size:32
Alignment explanation
Indices: 373489--373551 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
373479 TTCAACAATT
*
373489 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
373521 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
373552 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:373612 original size:13 final size:13
Alignment explanation
Indices: 373594--373619 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
373584 CATTTTTCTG
373594 TGTATCGATACAT
1 TGTATCGATACAT
373607 TGTATCGATACAT
1 TGTATCGATACAT
373620 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:373616 original size:33 final size:33
Alignment explanation
Indices: 373574--373640 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
373564 GCCAAGGAAA
***
373574 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
373607 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
373640 T
1 T
373641 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:376037 original size:52 final size:53
Alignment explanation
Indices: 375981--376082 Score: 143
Period size: 52 Copynumber: 1.9 Consensus size: 53
375971 AATTCTCCAC
* * * *
375981 AATCGGGGATATTCCAACCCCGGTTTTATTTTC-GAAACACCAATTTTTCTTT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCTTT
* *
376033 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTC
376083 ACAGTCGAGG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
52 29 0.67
53 14 0.33
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (53 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCTTT
Found at i:376123 original size:28 final size:28
Alignment explanation
Indices: 376091--376162 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
376081 TCACAGTCGA
** * **
376091 GGATACTCCAACCTTGTTATTTCATCGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
*
376119 GGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
376147 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
376163 GCTTTATTCC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.22, C:0.33, G:0.19, T:0.25
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCAGAGG
Found at i:376295 original size:78 final size:79
Alignment explanation
Indices: 376116--376319 Score: 232
Period size: 78 Copynumber: 2.6 Consensus size: 79
376106 GTTATTTCAT
* * *
376116 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCCCAAAATAT
* * *
376181 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * ** *
376195 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCC-GATTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCCCAAAAT-A
376258 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* ** * *
376273 CGGGGATACTCCAGCCCCGTTATTTTTAAGGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
376320 TTATTATCTC
Statistics
Matches: 104, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
77 3 0.03
78 59 0.57
79 42 0.40
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:378142 original size:20 final size:20
Alignment explanation
Indices: 378096--378152 Score: 82
Period size: 19 Copynumber: 3.0 Consensus size: 20
378086 TTGTACCGAT
*
378096 ACAA-TGTATCGATACATGT
1 ACAATTGTATCGATACATGG
*
378115 TC-ATTGTATCGATACATGG
1 ACAATTGTATCGATACATGG
378134 ACAATTGTATCGATACATG
1 ACAATTGTATCGATACATG
378153 AAACTGGTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 1 0.03
19 16 0.48
20 16 0.48
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (20 bp):
ACAATTGTATCGATACATGG
Found at i:379419 original size:180 final size:180
Alignment explanation
Indices: 379107--379459 Score: 555
Period size: 180 Copynumber: 2.0 Consensus size: 180
379097 TTATCTAATA
* *
379107 CAATCATTTCTACGACATACTCGAACCTTACATTCGATTTAACTTTTGAAACATGTTATTTCGAT
1 CAATCATTTCTAAGACATACTCCAACCTTACATTCGATTTAACTTTTGAAACATGTTATTTCGAT
* * *
379172 AAAAGGTGACAAAACCTTTTCATTTCAACAAATCATTAATTGCAATTCAATAACATATCTGCAAA
66 AAAAGATGACAAAACCTTTCCATTTCAACAAATCATTAATTGCAATTCAATAACATATCTACAAA
*
379237 ACCCTCTTAAATATTGAACAAACCTTTAAATTTGAATAAATAAACCAACT
131 ACCCTATTAAATATTGAACAAACCTTTAAATTTGAATAAATAAACCAACT
* ** *
379287 CAATCATTTCTAAGACATACTCCCACCTTATGTTCGATTTAACTTTTGAAACATGTTATTTTGAT
1 CAATCATTTCTAAGACATACTCCAACCTTACATTCGATTTAACTTTTGAAACATGTTATTTCGAT
* * *
379352 AAAGAGATGAC-ACAGCTTTCCATTTCAACAAATCATTAATTGCAATTCAATAACGTATCTACAA
66 AAA-AGATGACAAAACCTTTCCATTTCAACAAATCATTAATTGCAATTCAATAACATATCTACAA
* *
379416 AACCCTATTAAATATTTAACAAACCTTTAAATTTGAATGAATAA
130 AACCCTATTAAATATTGAACAAACCTTTAAATTTGAATAAATAA
379460 CCTAACTTAT
Statistics
Matches: 157, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
180 151 0.96
181 6 0.04
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.34
Consensus pattern (180 bp):
CAATCATTTCTAAGACATACTCCAACCTTACATTCGATTTAACTTTTGAAACATGTTATTTCGAT
AAAAGATGACAAAACCTTTCCATTTCAACAAATCATTAATTGCAATTCAATAACATATCTACAAA
ACCCTATTAAATATTGAACAAACCTTTAAATTTGAATAAATAAACCAACT
Found at i:379472 original size:26 final size:26
Alignment explanation
Indices: 379443--379524 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
379433 AACAAACCTT
379443 TAAATTTGAATGAATAACCTAACTTA
1 TAAATTTGAATGAATAACCTAACTTA
* * **
379469 TAAA-TAGAAAT-ATTGAACAAAACTT-
1 TAAATTTG-AATGAAT-AACCTAACTTA
* * *
379494 TAAACTTAAATGAATAACCTAACTCA
1 TAAATTTGAATGAATAACCTAACTTA
379520 TAAAT
1 TAAAT
379525 AGATCTGCCA
Statistics
Matches: 40, Mismatches: 11, Indels: 10
0.66 0.18 0.16
Matches are distributed among these distances:
25 18 0.45
26 22 0.55
ACGTcount: A:0.51, C:0.12, G:0.06, T:0.30
Consensus pattern (26 bp):
TAAATTTGAATGAATAACCTAACTTA
Found at i:379488 original size:51 final size:51
Alignment explanation
Indices: 379425--379527 Score: 161
Period size: 51 Copynumber: 2.0 Consensus size: 51
379415 AAACCCTATT
* * * * *
379425 AAATATTTAACAAACCTTTAAATTTGAATGAATAACCTAACTTATAAATAG
1 AAATATTGAACAAAACTTTAAACTTAAATGAATAACCTAACTCATAAATAG
379476 AAATATTGAACAAAACTTTAAACTTAAATGAATAACCTAACTCATAAATAG
1 AAATATTGAACAAAACTTTAAACTTAAATGAATAACCTAACTCATAAATAG
379527 A
1 A
379528 TCTGCCATGT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.30
Consensus pattern (51 bp):
AAATATTGAACAAAACTTTAAACTTAAATGAATAACCTAACTCATAAATAG
Found at i:379517 original size:25 final size:24
Alignment explanation
Indices: 379440--379517 Score: 59
Period size: 25 Copynumber: 3.1 Consensus size: 24
379430 TTTAACAAAC
*
379440 CTTTAAATTTGAATGAATAACCTAA
1 CTTTAAA-TTAAATGAATAACCTAA
* * **
379465 CTTATAAATAGAAAT-ATTGAACAAAA
1 CTT-TAAAT-TAAATGAAT-AACCTAA
379491 CTTTAAACTTAAATGAATAACCTAA
1 CTTTAAA-TTAAATGAATAACCTAA
379516 CT
1 CT
379518 CATAAATAGA
Statistics
Matches: 39, Mismatches: 9, Indels: 10
0.67 0.16 0.17
Matches are distributed among these distances:
25 21 0.54
26 18 0.46
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.32
Consensus pattern (24 bp):
CTTTAAATTAAATGAATAACCTAA
Found at i:382487 original size:21 final size:21
Alignment explanation
Indices: 382462--382509 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
382452 GTATCTTTGA
382462 ATGAAATG-ATGCATTAGTTGG
1 ATGAAA-GAATGCATTAGTTGG
**
382483 ATGAAAGAATGCATTTTTTGG
1 ATGAAAGAATGCATTAGTTGG
382504 ATGAAA
1 ATGAAA
382510 AAAAATGCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.38, C:0.04, G:0.25, T:0.33
Consensus pattern (21 bp):
ATGAAAGAATGCATTAGTTGG
Found at i:385764 original size:21 final size:21
Alignment explanation
Indices: 385739--385786 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
385729 GTATCTTTGA
385739 ATGAAATG-ATGCATTGGTTGG
1 ATGAAA-GAATGCATTGGTTGG
**
385760 ATGAAAGAATGCATTTTTTGG
1 ATGAAAGAATGCATTGGTTGG
385781 ATGAAA
1 ATGAAA
385787 AAAATGCAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.33
Consensus pattern (21 bp):
ATGAAAGAATGCATTGGTTGG
Found at i:385800 original size:22 final size:21
Alignment explanation
Indices: 385756--385800 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
385746 GATGCATTGG
* **
385756 TTGGATGAAAGAATGCATTTT
1 TTGGATGAAAAAATGCAACTT
385777 TTGGATGAAAAAAATGCAACTT
1 TTGGATG-AAAAAATGCAACTT
385799 TT
1 TT
385801 AATAACCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.36
Consensus pattern (21 bp):
TTGGATGAAAAAATGCAACTT
Found at i:387020 original size:11 final size:11
Alignment explanation
Indices: 386992--387025 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
386982 AAGAAGCGAG
*
386992 AAGGAAATAAAT
1 AAGGAAA-AAAA
387004 AAGGAAAAAAA
1 AAGGAAAAAAA
387015 AAGGAAAAAAA
1 AAGGAAAAAAA
387026 GAAAATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 14 0.67
12 7 0.33
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (11 bp):
AAGGAAAAAAA
Found at i:387339 original size:24 final size:24
Alignment explanation
Indices: 387295--387342 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
387285 CATAAATAAA
*
387295 TATTATATATAATATTCTATAATT
1 TATTATATATAATAATCTATAATT
*
387319 TATTATATATTATTAAT-TATAATT
1 TATTATATA-TAATAATCTATAATT
387343 CCATTAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (24 bp):
TATTATATATAATAATCTATAATT
Found at i:391869 original size:21 final size:20
Alignment explanation
Indices: 391836--391876 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
391826 GAGGTGTTGG
391836 ACATACTAAAAATGCATGAA
1 ACATACTAAAAATGCATGAA
*
391856 ACATAGCTCAAAATGCATGAA
1 ACATA-CTAAAAATGCATGAA
391877 CATGGGCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.51, C:0.17, G:0.12, T:0.20
Consensus pattern (20 bp):
ACATACTAAAAATGCATGAA
Found at i:393539 original size:52 final size:52
Alignment explanation
Indices: 393392--393946 Score: 258
Period size: 52 Copynumber: 10.5 Consensus size: 52
393382 GACGATAAAG
* * ** * *
393392 ATGAGAAGAGTGCCAAAGTGCTGATTCAAGGTTAGCAGCGTTAGG-CTT-A-AA
1 ATGAAAAG-GTGCCAATGTGCTGATTCAAGGCCAGCAACATT-GGACTTGAGAA
* * * ** *
393443 GATGATAAAGGTACCAGTATGCTGATTCAAGGCCAGTGATATTGGACTTGAGAA
1 -ATGA-AAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTGAGAA
* *
393497 A-GAAGAAGGTGCCAATGTGCTAATTCAAGACCAGCAACATTGGACTTAAAGATGATAA
1 ATGAA-AAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTT---GA-G--AA
* * * * * * * * *
393555 AGGTGAAAAGAGTGCCAAAGTGCTGAATAAAGGTCAACGACGTTGG-GTTTA-AA
1 A--TGAAAAG-GTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTGAGAA
* ** ** *
393608 GATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGTGATGTTAGACTTGAGAA
1 -ATGA-AAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTGAGAA
* * *
393662 A-GAAGAAGGTACCAATGTGTTGATTCAAGGCTAGCAACATTGGACTT-A-AA
1 ATGAA-AAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTGAGAA
* * * **
393712 GATGATAAATGTGCCAATATGCTGATTCAAGGCTAGCAATGTTGGACTTGAGAA
1 -ATGA-AAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTGAGAA
* * **
393766 A-GAAGAAGGTGCCAATGTACTGATTTAAGGTTAGCAACATTGGACTT-A-AA
1 ATGAA-AAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTGAGAA
* * ** *
393816 GATGATAAAGGTGCCAATATGTTGATTCAAGGCCAGTGATATTGGACTT-A-AA
1 -ATGA-AAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTGAGAA
* * * * * * * * *
393868 AGTGCAACGAATGTCAATGTGCTGATTCACGGCTAGCGACATTAGACTTGA-AG
1 A-TGAAAAG-GTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTGAGAA
* * *
393921 ATGAGAAGAATGCCAATATGCTGATT
1 ATGAAAAG-GTGCCAATGTGCTGATT
393947 TTAGGTCAAT
Statistics
Matches: 381, Mismatches: 90, Indels: 64
0.71 0.17 0.12
Matches are distributed among these distances:
50 4 0.01
51 13 0.03
52 294 0.77
53 22 0.06
54 7 0.02
55 2 0.01
56 1 0.00
57 1 0.00
58 3 0.01
60 5 0.01
61 29 0.08
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.25
Consensus pattern (52 bp):
ATGAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTGAGAA
Found at i:393631 original size:165 final size:164
Alignment explanation
Indices: 393341--393720 Score: 537
Period size: 165 Copynumber: 2.3 Consensus size: 164
393331 TTTTGTAATA
* * * * *
393341 TGCCAGTGTGTAGATTCAAGGCCTGCAACACTGGACTTAAAGACGATAAAGATGAGAAGAGTGCC
1 TGCCAATGTGTA-ATTCAAGGCCAGCAACATTGGACTTAAAGATGATAAAGATGAAAAGAGTGCC
* * * * *
393406 AAAGTGCTGATTCAAGGTTAGCAGCGTTAGGCTTAAAGATGATAAAGGTACCAGTATGCTGATTC
65 AAAGTGCTGAATAAAGGTCAACAGCGTTAGGCTTAAAGATGATAAAGGTACCAATATGCTGATTC
*
393471 AAGGCCAGTGATATTGGACTTGAGAAAGAAGAAGG
130 AAGGCCAGTGATATTAGACTTGAGAAAGAAGAAGG
* *
393506 TGCCAATGTGCTAATTCAAGACCAGCAACATTGGACTTAAAGATGATAAAGGTGAAAAGAGTGCC
1 TGCCAATGTG-TAATTCAAGGCCAGCAACATTGGACTTAAAGATGATAAAGATGAAAAGAGTGCC
* * *
393571 AAAGTGCTGAATAAAGGTCAAC-GACGTTGGGTTTAAAGATGATAAAGGTGCCAATATGCTGATT
65 AAAGTGCTGAATAAAGGTCAACAG-CGTTAGGCTTAAAGATGATAAAGGTACCAATATGCTGATT
*
393635 CAAGGCCAGTGATGTTAGACTTGAGAAAGAAGAAGG
129 CAAGGCCAGTGATATTAGACTTGAGAAAGAAGAAGG
* * *
393671 TACCAATGTGTTGATTCAAGGCTAGCAACATTGGACTTAAAGATGATAAA
1 TGCCAATGTG-TAATTCAAGGCCAGCAACATTGGACTTAAAGATGATAAA
393721 TGTGCCAATA
Statistics
Matches: 191, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
164 1 0.01
165 188 0.98
166 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.23
Consensus pattern (164 bp):
TGCCAATGTGTAATTCAAGGCCAGCAACATTGGACTTAAAGATGATAAAGATGAAAAGAGTGCCA
AAGTGCTGAATAAAGGTCAACAGCGTTAGGCTTAAAGATGATAAAGGTACCAATATGCTGATTCA
AGGCCAGTGATATTAGACTTGAGAAAGAAGAAGG
Found at i:393783 original size:104 final size:104
Alignment explanation
Indices: 393603--393946 Score: 437
Period size: 104 Copynumber: 3.3 Consensus size: 104
393593 GACGTTGGGT
*
393603 TTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGTGATGTTAGACTTGAGAAAGAAGA
1 TTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGTGATGTTGGACTTGAGAAAGAAGA
* *
393668 AGGTACCAATGTGTTGATTCAAGGCTAGCAACATTGGAC
66 AGGTGCCAATGTGCTGATTCAAGGCTAGCAACATTGGAC
* * **
393707 TTAAAGATGATAAATGTGCCAATATGCTGATTCAAGGCTAGCAATGTTGGACTTGAGAAAGAAGA
1 TTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGTGATGTTGGACTTGAGAAAGAAGA
* * *
393772 AGGTGCCAATGTACTGATTTAAGGTTAGCAACATTGGAC
66 AGGTGCCAATGTGCTGATTCAAGGCTAGCAACATTGGAC
* *
393811 TTAAAGATGATAAAGGTGCCAATATGTTGATTCAAGGCCAGTGATATTGGACTT-A-AAAGTGCA
1 TTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGTGATGTTGGACTTGAGAAA--G-A
* * * *
393874 ACGAA--TGTCAATGTGCTGATTCACGGCTAGCGACATTAGAC
63 A-GAAGGTGCCAATGTGCTGATTCAAGGCTAGCAACATTGGAC
* * *
393915 TTGAAGATGA-GAAGAATGCCAATATGCTGATT
1 TTAAAGATGATAAAG-GTGCCAATATGCTGATT
393947 TTAGGTCAAT
Statistics
Matches: 208, Mismatches: 27, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
102 3 0.01
103 4 0.02
104 196 0.94
105 2 0.01
106 3 0.01
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.26
Consensus pattern (104 bp):
TTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGTGATGTTGGACTTGAGAAAGAAGA
AGGTGCCAATGTGCTGATTCAAGGCTAGCAACATTGGAC
Found at i:393891 original size:156 final size:156
Alignment explanation
Indices: 393667--394028 Score: 357
Period size: 156 Copynumber: 2.3 Consensus size: 156
393657 GAGAAAGAAG
* * * * *
393667 AAGGTACCAATGTGTTGATTCAAGGCTAGCAACATTGGACTT-AAAGATGATAAATGTGCCAATA
1 AAGGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTAAAAGATGATAAATGT-CCAATA
** * *
393731 TGCTGATTCAAGGCTAGCAATGTTGGACTTG-AGA-AAGAAGAAGGTGCCAATGTACTGATTTAA
65 TGCTGATTCAAGGCTAGCAACATTAGACTTGAAGATAAGAAGAA--TGCCAATATACTGATTTAA
*
393794 GGT-TA-GCAACATTGGACTTAA-AGATGATA
128 GGTCAATG-AA-ATTGGACTTAAGA-ATGATA
*
393823 AAGGTGCCAATATGTTGATTCAAGGCCAGTGATATTGGACTTAAAAG-TGCA-ACGAATGT-CAA
1 AAGGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTAAAAGATG-ATA--AATGTCCAA
* * * * * *
393885 TGTGCTGATTCACGGCTAGCGACATTAGACTTGAAGATGAGAAGAATGCCAATATGCTGATTTTA
63 TATGCTGATTCAAGGCTAGCAACATTAGACTTGAAGATAAGAAGAATGCCAATATACTGATTTAA
* * *
393950 GGTCAATGAAATTGGGCTTAGGAATGTTA
128 GGTCAATGAAATTGGACTTAAGAATGATA
* * * *
393979 AAGATGCCAATATGCTGATTTAAGGCCACCGATATTGGACTT-AAAGATGA
1 AAGGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTAAAAGATGA
394029 GAAGGATGAT
Statistics
Matches: 171, Mismatches: 25, Indels: 21
0.79 0.12 0.10
Matches are distributed among these distances:
155 5 0.03
156 141 0.82
157 12 0.07
158 13 0.08
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.27
Consensus pattern (156 bp):
AAGGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTAAAAGATGATAAATGTCCAATAT
GCTGATTCAAGGCTAGCAACATTAGACTTGAAGATAAGAAGAATGCCAATATACTGATTTAAGGT
CAATGAAATTGGACTTAAGAATGATA
Found at i:394149 original size:32 final size:32
Alignment explanation
Indices: 394113--394175 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
394103 ATTGGACTTA
394113 GAAAGAGATGCCACCAACTTCTATGGGCTTTT
1 GAAAGAGATGCCACCAACTTCTATGGGCTTTT
* * * *
394145 GAAAGGGTTGCCACCGACTTGTATGGGCTTT
1 GAAAGAGATGCCACCAACTTCTATGGGCTTT
394176 AAGAAGGGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.29
Consensus pattern (32 bp):
GAAAGAGATGCCACCAACTTCTATGGGCTTTT
Found at i:394183 original size:32 final size:32
Alignment explanation
Indices: 394121--394214 Score: 109
Period size: 32 Copynumber: 2.9 Consensus size: 32
394111 TAGAAAGAGA
* *
394121 TGCCACCAACTTCTATGGGCTTT-TGAAAGGGT
1 TGCCACCAACTTGTATGGGCTTTAAG-AAGGGT
*
394153 TGCCACCGACTTGTATGGGCTTTAAGAAGGGT
1 TGCCACCAACTTGTATGGGCTTTAAGAAGGGT
* * * *
394185 TGCCACTAACTTGTGTGAGCTTTAAAAAGG
1 TGCCACCAACTTGTATGGGCTTTAAGAAGG
394215 ATTCTCCACT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
32 52 0.98
33 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (32 bp):
TGCCACCAACTTGTATGGGCTTTAAGAAGGGT
Found at i:394449 original size:28 final size:27
Alignment explanation
Indices: 394386--394450 Score: 94
Period size: 28 Copynumber: 2.4 Consensus size: 27
394376 TATATACAGT
*
394386 AGGTGCCACTAATTGTGGACTTCGAAG
1 AGGTGCCACTAATTATGGACTTCGAAG
*
394413 AGATGCCACTAACTTATGGACTTCGAAG
1 AGGTGCCACTAA-TTATGGACTTCGAAG
*
394441 AGGTACCACT
1 AGGTGCCACT
394451 GACTAGTGGG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
27 11 0.33
28 22 0.67
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.25
Consensus pattern (27 bp):
AGGTGCCACTAATTATGGACTTCGAAG
Found at i:394567 original size:15 final size:14
Alignment explanation
Indices: 394524--394558 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
394514 CGTTCTCGAC
*
394524 AAAAGTTCTTGACA
1 AAAATTTCTTGACA
394538 AAAATTTCTTGACA
1 AAAATTTCTTGACA
*
394552 ACAATTT
1 AAAATTT
394559 TGTTGACAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (14 bp):
AAAATTTCTTGACA
Found at i:408886 original size:20 final size:21
Alignment explanation
Indices: 408861--408902 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
408851 GAAGGTGTTG
408861 AACATA-CTAAAAATGCATGA
1 AACATAGCTAAAAATGCATGA
*
408881 AACATAGCTCAAAATGCATGA
1 AACATAGCTAAAAATGCATGA
408902 A
1 A
408903 CATGGGCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.52, C:0.17, G:0.12, T:0.19
Consensus pattern (21 bp):
AACATAGCTAAAAATGCATGA
Found at i:408904 original size:20 final size:19
Alignment explanation
Indices: 408859--408905 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 19
408849 ATGAAGGTGT
408859 TGAACATACTAAAAATGCA
1 TGAACATACTAAAAATGCA
*
408878 TGAAACATAGCTCAAAATGCA
1 TG-AACATA-CTAAAAATGCA
408899 TGAACAT
1 TGAACAT
408906 GGGCTATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 11 0.44
21 12 0.48
ACGTcount: A:0.49, C:0.17, G:0.13, T:0.21
Consensus pattern (19 bp):
TGAACATACTAAAAATGCA
Found at i:409370 original size:12 final size:12
Alignment explanation
Indices: 409353--409388 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
409343 GATGCTATTA
*
409353 GAAATGTTGCTG
1 GAAATGTAGCTG
*
409365 GAAATGTAGATG
1 GAAATGTAGCTG
409377 GAAATGTAGCTG
1 GAAATGTAGCTG
409389 AAAAACCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.33, C:0.06, G:0.33, T:0.28
Consensus pattern (12 bp):
GAAATGTAGCTG
Found at i:410594 original size:52 final size:51
Alignment explanation
Indices: 410488--410630 Score: 130
Period size: 52 Copynumber: 2.7 Consensus size: 51
410478 TTAAAGACGA
* ** *
410488 TAAAGATGAGAAGAGTGCCAA-AGTGCTGATTCAAGTTCAGCGACGTTAGGCT
1 TAAAGATGAAAAG-GTGCCAATA-TGCTGATTCAAGGCCAACGACGTTAGGCT
*
410540 TAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAACGATGTT-GGACT
1 TAAAGATGA-AAAGGTGCCAATATGCTGATTCAAGGCCAACGACGTTAGG-CT
** * *
410592 T-AAGAAAAAAGAAGGTGCCAATGTGCTAATTCAAGGCCA
1 TAAAG-ATGAA-AAGGTGCCAATATGCTGATTCAAGGCCA
410631 GCAACTTCTT
Statistics
Matches: 77, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
51 6 0.08
52 67 0.87
53 4 0.05
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.22
Consensus pattern (51 bp):
TAAAGATGAAAAGGTGCCAATATGCTGATTCAAGGCCAACGACGTTAGGCT
Found at i:411578 original size:21 final size:19
Alignment explanation
Indices: 411554--411607 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 19
411544 TTCAACAATT
411554 TGTATCGATACAAACAGTAAA
1 TGTATCGATACAAA-AGT-AA
* *
411575 TGTATCGATACATAAGTAT
1 TGTATCGATACAAAAGTAA
411594 TGTATCGATACAAA
1 TGTATCGATACAAA
411608 GTTGCCCTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 14 0.47
20 3 0.10
21 13 0.43
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.30
Consensus pattern (19 bp):
TGTATCGATACAAAAGTAA
Found at i:418692 original size:14 final size:13
Alignment explanation
Indices: 418670--418729 Score: 72
Period size: 14 Copynumber: 4.7 Consensus size: 13
418660 AAGTAAAAAC
418670 ACAAAAAAAACAA
1 ACAAAAAAAACAA
418683 ACAAACAAAAACAA
1 ACAAA-AAAAACAA
*
418697 ACAAACGAAAAC-A
1 ACAAA-AAAAACAA
418710 A-AAAAAAAACAA
1 ACAAAAAAAACAA
418722 A-AAAAAAA
1 ACAAAAAAA
418730 GAAAGATCAA
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
11 5 0.12
12 12 0.28
13 7 0.16
14 19 0.44
ACGTcount: A:0.83, C:0.15, G:0.02, T:0.00
Consensus pattern (13 bp):
ACAAAAAAAACAA
Found at i:418694 original size:10 final size:9
Alignment explanation
Indices: 418664--418727 Score: 58
Period size: 9 Copynumber: 6.8 Consensus size: 9
418654 AGTCAAAAGT
*
418664 AAAAACACA
1 AAAAAAACA
418673 AAAAAAAC-
1 AAAAAAACA
*
418681 AAACAAACA
1 AAAAAAACA
418690 AAAACAAACA
1 AAAA-AAACA
*
418700 AACGAAAACAAA
1 AA--AAAA-ACA
418712 AAAAAAACA
1 AAAAAAACA
418721 AAAAAAA
1 AAAAAAA
418728 AAGAAAGATC
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
8 7 0.16
9 19 0.42
10 11 0.24
11 2 0.04
12 6 0.13
ACGTcount: A:0.83, C:0.16, G:0.02, T:0.00
Consensus pattern (9 bp):
AAAAAAACA
Found at i:418728 original size:10 final size:10
Alignment explanation
Indices: 418664--418728 Score: 62
Period size: 10 Copynumber: 6.5 Consensus size: 10
418654 AGTCAAAAGT
418664 AAAAACACAAA
1 AAAAACA-AAA
418675 AAAAAC--AA
1 AAAAACAAAA
*
418683 ACAAACAAAA
1 AAAAACAAAA
* *
418693 ACAAACAAAC
1 AAAAACAAAA
*
418703 GAAAACAAAAA
1 AAAAAC-AAAA
418714 AAAAACAAAA
1 AAAAACAAAA
418724 AAAAA
1 AAAAA
418729 AGAAAGATCA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
8 7 0.16
10 24 0.53
11 14 0.31
ACGTcount: A:0.83, C:0.15, G:0.02, T:0.00
Consensus pattern (10 bp):
AAAAACAAAA
Found at i:420048 original size:30 final size:30
Alignment explanation
Indices: 419981--420631 Score: 612
Period size: 30 Copynumber: 21.0 Consensus size: 30
419971 ATATCTTCAA
* * *
419981 ATCTCTTTTTAAAGTCCACGACTGAGTGGC
1 ATCTCTTCTCAAAGTCCACGACTCAGTGGC
* * *
420011 AATCTCTTCTCAAAGTTCACAACTTAGTGGC
1 -ATCTCTTCTCAAAGTCCACGACTCAGTGGC
*
420042 ATCTCTT-TCCAAAGTCCATGACTCAGTGGC
1 ATCTCTTCT-CAAAGTCCACGACTCAGTGGC
* *
420072 ATCTTTTCTTCAAAGTCCACGACTCAATGGC
1 ATCTCTTC-TCAAAGTCCACGACTCAGTGGC
* * *
420103 AATCTCTTTTCTAAGTCCACGACTCAATGGC
1 -ATCTCTTCTCAAAGTCCACGACTCAGTGGC
420134 AATCTCTTCTCAAAGTCCACGACTCAGTGGC
1 -ATCTCTTCTCAAAGTCCACGACTCAGTGGC
*
420165 ATCT-TGTCCCAAAGTCCACGACTCAGTGGC
1 ATCTCT-TCTCAAAGTCCACGACTCAGTGGC
* *
420195 ATCTTTTCTTCAAAGTCCACAACTCAGTGGC
1 ATCTCTTC-TCAAAGTCCACGACTCAGTGGC
* *
420226 ATCTCTTTTCTAAGTCCACGACTCAGTGGC
1 ATCTCTTCTCAAAGTCCACGACTCAGTGGC
* * * *
420256 ATCCTTTTCTTCTAAGTCCACAACTCAATGGC
1 AT-CTCTTC-TCAAAGTCCACGACTCAGTGGC
* * *
420288 ATCGTTTTTCTTCAAAATCCATGACTCAGTGGC
1 ATC--TCTTC-TCAAAGTCCACGACTCAGTGGC
* *
420321 ATCTTTTTTCTTCAAAGTCCATGACTCAGTGGC
1 ATC--TCTTC-TCAAAGTCCACGACTCAGTGGC
420354 ATCTCTTC-CTAAAGTCCACGACTCAGTGGC
1 ATCTCTTCTC-AAAGTCCACGACTCAGTGGC
*
420384 ATCTCTTC-CTAAAGTCCACAACTCAGTGGC
1 ATCTCTTCTC-AAAGTCCACGACTCAGTGGC
* * *
420414 ATCTTTTCTTCAAAGTCCACAACTCCGTGGC
1 ATCTCTTC-TCAAAGTCCACGACTCAGTGGC
* * *
420445 ATCTCTTTTCTAAGTCCACGACTTAGTGGC
1 ATCTCTTCTCAAAGTCCACGACTCAGTGGC
*
420475 ATC-CTTTCCTTCCAAGTCCACGACTCAGTGGC
1 ATCTC-TT-C-TCAAAGTCCACGACTCAGTGGC
* * *
420507 ATCTTTTTTCTTCAAAGTCCACGACTTAGTGAC
1 ATC--TCTTC-TCAAAGTCCACGACTCAGTGGC
*
420540 ATCTTTTC-CTAAAGTCCACGACTCAGTGGC
1 ATCTCTTCTC-AAAGTCCACGACTCAGTGGC
* * *
420570 ATCTTTTCTTCAAAGTCCACAACGCAGTGGC
1 ATCTCTTC-TCAAAGTCCACGACTCAGTGGC
* * * * *
420601 ATCTCTTTTCTAAGTCTACAACTCCGTGGC
1 ATCTCTTCTCAAAGTCCACGACTCAGTGGC
420631 A
1 A
420632 CCTTATTCCC
Statistics
Matches: 533, Mismatches: 64, Indels: 47
0.83 0.10 0.07
Matches are distributed among these distances:
29 5 0.01
30 208 0.39
31 183 0.34
32 54 0.10
33 81 0.15
34 2 0.00
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.32
Consensus pattern (30 bp):
ATCTCTTCTCAAAGTCCACGACTCAGTGGC
Found at i:420085 original size:61 final size:61
Alignment explanation
Indices: 419981--420631 Score: 690
Period size: 61 Copynumber: 10.5 Consensus size: 61
419971 ATATCTTCAA
** * * * *
419981 ATCTCTTTTTAAAGTCCACGACTGAGTGGCAATCTCTTC-TCAAAGTTCACAACTTAGTGGC
1 ATCTCTTTCCAAAGTCCACGACTCAGTGGC-ATCTTTTCTTCAAAGTCCACAACTCAGTGGC
* * *
420042 ATCTCTTTCCAAAGTCCATGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAATGGC
1 ATCTCTTTCCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACTCAGTGGC
* * * * *
420103 AATCTCTTTTCTAAGTCCACGACTCAATGGCAATCTCTTC-TCAAAGTCCACGACTCAGTGGC
1 -ATCTCTTTCCAAAGTCCACGACTCAGTGGC-ATCTTTTCTTCAAAGTCCACAACTCAGTGGC
*
420165 ATCT-TGTCCCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACTCAGTGGC
1 ATCTCT-TTCCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACTCAGTGGC
* * * *
420226 ATCTCTTTTCTAAGTCCACGACTCAGTGGCATCCTTTTCTTCTAAGTCCACAACTCAATGGC
1 ATCTCTTTCCAAAGTCCACGACTCAGTGGCAT-CTTTTCTTCAAAGTCCACAACTCAGTGGC
* * * **
420288 ATCGTTTTTCTTCAAAATCCATGACTCAGTGGCATCTTTTTTCTTCAAAGTCCATGACTCAGTGG
1 ATC-TCTTTC--CAAAGTCCACGACTCAGTGGCATC--TTTTCTTCAAAGTCCACAACTCAGTGG
420353 C
61 C
* *
420354 ATCTC-TTCCTAAAGTCCACGACTCAGTGGCATCTCTTCCT-AAAGTCCACAACTCAGTGGC
1 ATCTCTTTCC-AAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACTCAGTGGC
* * * * * *
420414 ATCT-TTTCTTCAAAGTCCACAACTCCGTGGCATCTCTT-TTCTAAGTCCACGACTTAGTGGC
1 ATCTCTTTC--CAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACTCAGTGGC
* * * *
420475 ATC-CTTTCCTTCCAAGTCCACGACTCAGTGGCATCTTTTTTCTTCAAAGTCCACGACTTAGTGA
1 ATCTCTTT-C--CAAAGTCCACGACTCAGTGGCATC--TTTTCTTCAAAGTCCACAACTCAGTGG
420539 C
61 C
*
420540 ATCT-TTTCCTAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACGCAGTGGC
1 ATCTCTTTCC-AAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACTCAGTGGC
* * * * *
420601 ATCTCTTTTCTAAGTCTACAACTCCGTGGCA
1 ATCTCTTTCCAAAGTCCACGACTCAGTGGCA
420632 CCTTATTCCC
Statistics
Matches: 501, Mismatches: 64, Indels: 50
0.81 0.10 0.08
Matches are distributed among these distances:
60 41 0.08
61 214 0.43
62 109 0.22
63 54 0.11
64 8 0.02
65 48 0.10
66 27 0.05
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.32
Consensus pattern (61 bp):
ATCTCTTTCCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACTCAGTGGC
Found at i:420371 original size:219 final size:216
Alignment explanation
Indices: 419991--420631 Score: 830
Period size: 219 Copynumber: 3.0 Consensus size: 216
419981 ATCTCTTTTT
* * * * * *
419991 AAAGTCCACGACTGAGTGGCAATCTCTTCTCAAAGTTCACAACTTAGTGGCAT-CTCTTTC--CA
1 AAAGTCCACAACTCAGTGGC-ATCTCTTTTCTAAGTCCACGACTTAGTGGCATCCT-TTTCTTCA
* *
420053 AAGTCCATGACTCAGTGGCATC-TTTTCTTCAAAGTCCACGACTCAATGGCAATCTCTTTTCT-A
64 AAGTCCACGACTCAGTGGCATCTTTTTCTTCAAAGTCCACGACTCAGTGGC-ATCT-TTTTCTAA
*
420116 AGTCCACGACTCAATGGCAATCTCTT-CTCAAAGTCCACGACTCAGTGGCATCT-TGTCCCAAAG
127 AGTCCACGACTCAGTGGC-ATCTCTTCCTCAAAGTCCACGACTCAGTGGCATCTCT-TCCCAAAG
*
420179 TCCACGACTCAGTGGCATCTTTTCTTC
190 TCCACAACTCAGTGGCATCTTTTCTTC
* *
420206 AAAGTCCACAACTCAGTGGCATCTCTTTTCTAAGTCCACGACTCAGTGGCATCCTTTTCTTCTAA
1 AAAGTCCACAACTCAGTGGCATCTCTTTTCTAAGTCCACGACTTAGTGGCATCCTTTTCTTCAAA
* * * *
420271 GTCCACAACTCAATGGCATCGTTTTTCTTCAAAATCCATGACTCAGTGGCATCTTTTTTCTTCAA
66 GTCCACGACTCAGTGGCATC-TTTTTCTTCAAAGTCCACGACTCAGTGGCATC-TTTTTC-T-AA
* *
420336 AGTCCATGACTCAGTGGCATCTCTTCCT-AAAGTCCACGACTCAGTGGCATCTCTTCCTAAAGTC
127 AGTCCACGACTCAGTGGCATCTCTTCCTCAAAGTCCACGACTCAGTGGCATCTCTTCCCAAAGTC
420400 CACAACTCAGTGGCATCTTTTCTTC
192 CACAACTCAGTGGCATCTTTTCTTC
* * *
420425 AAAGTCCACAACTCCGTGGCATCTCTTTTCTAAGTCCACGACTTAGTGGCATCCTTTCCTTCCAA
1 AAAGTCCACAACTCAGTGGCATCTCTTTTCTAAGTCCACGACTTAGTGGCATCCTTTTCTTCAAA
* * *
420490 GTCCACGACTCAGTGGCATCTTTTTTCTTCAAAGTCCACGACTTAGTGACATCTTTTCCTAAAGT
66 GTCCACGACTCAGTGGCATC-TTTTTCTTCAAAGTCCACGACTCAGTGGCATCTTTTTCTAAAGT
* * * * ** * *
420555 CCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACGCAGTGGCATCTCTTTTCTAAGTCTAC
130 CCACGACTCAGTGGCATCTCTTCCTCAAAGTCCACGACTCAGTGGCATCTCTTCCCAAAGTCCAC
*
420620 AACTCCGTGGCA
195 AACTCAGTGGCA
420632 CCTTATTCCC
Statistics
Matches: 373, Mismatches: 41, Indels: 22
0.86 0.09 0.05
Matches are distributed among these distances:
214 31 0.08
215 20 0.05
216 47 0.13
217 52 0.14
218 32 0.09
219 171 0.46
220 20 0.05
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.31
Consensus pattern (216 bp):
AAAGTCCACAACTCAGTGGCATCTCTTTTCTAAGTCCACGACTTAGTGGCATCCTTTTCTTCAAA
GTCCACGACTCAGTGGCATCTTTTTCTTCAAAGTCCACGACTCAGTGGCATCTTTTTCTAAAGTC
CACGACTCAGTGGCATCTCTTCCTCAAAGTCCACGACTCAGTGGCATCTCTTCCCAAAGTCCACA
ACTCAGTGGCATCTTTTCTTC
Found at i:420735 original size:156 final size:155
Alignment explanation
Indices: 420083--420731 Score: 504
Period size: 156 Copynumber: 4.2 Consensus size: 155
420073 TCTTTTCTTC
* * * * * * * * *
420083 AAAGTCCACGACTCAATGGCAATCTCTT-TTCTAAGTCCACGACTCAATGGCAATCTCTTCTCAA
1 AAAGTCCACAACTCAGTGGC-ATCTTTTCTTCAAAGTCCACAACGCAGTGGC-ATCTCTTTTCTA
* * * *
420147 AGTCCACGACTCAGTGGCAT-CTTGTCC--CAAAGTCCACGACTCAGTGGCATC-TTTT-CTTCA
64 AGTCCACAACTCAGTGGCATCCTT-TCCTTCCAAGCCCACAACTCAGTGGCATCTTTTTCCTTCA
* * *
420207 AAGTCCACAACTCAGTGGCATCTCTTTTCT
128 AAGTCCACAACTTAGTGACA-C-CCTTTCT
* * * *
420237 -AAGTCCACGACTCAGTGGCATCCTTTTCTTCTAAGTCCACAACTCAATGGCATCGT-TTTTCTT
1 AAAGTCCACAACTCAGTGGCAT-CTTTTCTTCAAAGTCCACAACGCAGTGGCATC-TCTTTTC-T
* ** * * * * ** *
420300 CAAAATCCATGACTCAGTGGCATCTTTTTTCTTCAAAGTCCATGACTCAGTGGCATC-TCTTCC-
63 --AAGTCCACAACTCAGTGGCATC-CTTTCCTTCCAAGCCCACAACTCAGTGGCATCTTTTTCCT
* * * * *
420363 T-AAAGTCCACGACTCAGTGGCATCTCTTCCT
125 TCAAAGTCCACAACTTAGTGACA-CCCTTTCT
* *
420394 AAAGTCCACAACTCAGTGGCATCTTTTCTTCAAAGTCCACAACTCCGTGGCATCTCTTTTCTAAG
1 AAAGTCCACAACTCAGTGGCATCTTTTCTTCAAAGTCCACAACGCAGTGGCATCTCTTTTCTAAG
* * * * *
420459 TCCACGACTTAGTGGCATCCTTTCCTTCCAAGTCCACGACTCAGTGGCATCTTTTTTCTTCAAAG
66 TCCACAACTCAGTGGCATCCTTTCCTTCCAAGCCCACAACTCAGTGGCATCTTTTTCCTTCAAAG
* * *
420524 TCCACGACTTAGTGACATCTTTTCCT
131 TCCACAACTTAGTGACACCCTTT-CT
*
420550 AAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACGCAGTGGCATCTCTTTTCTAAG
1 AAAGTCCACAACTCAGTGGCATCTTTTCTTCAAAGTCCACAACGCAGTGGCATCTCTTTTCTAAG
* * * * *
420615 TCTACAACTCCGTGGCA-CCTTATTCCCTT-TAAGCCCATAACTCTGTGGCACTCTTTTTCCTGT
66 TCCACAACTCAGTGGCATCC-T-TT-CCTTCCAAGCCCACAACTCAGTGGCA-TCTTTTTCCT-T
* * * *
420678 -TAAGTTCATAACTCTA-TGGCACCCTTT-T
126 CAAAGTCCACAACT-TAGTGACACCCTTTCT
*
420706 -AAGTCCACAACTCTGTGGCATCTTTT
1 AAAGTCCACAACTCAGTGGCATCTTTT
420732 TCTTTTTAAA
Statistics
Matches: 416, Mismatches: 56, Indels: 45
0.80 0.11 0.09
Matches are distributed among these distances:
152 2 0.00
153 57 0.14
154 46 0.11
155 29 0.07
156 119 0.29
157 58 0.14
158 74 0.18
159 30 0.07
160 1 0.00
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.33
Consensus pattern (155 bp):
AAAGTCCACAACTCAGTGGCATCTTTTCTTCAAAGTCCACAACGCAGTGGCATCTCTTTTCTAAG
TCCACAACTCAGTGGCATCCTTTCCTTCCAAGCCCACAACTCAGTGGCATCTTTTTCCTTCAAAG
TCCACAACTTAGTGACACCCTTTCT
Found at i:420740 original size:94 final size:94
Alignment explanation
Indices: 420611--420799 Score: 227
Period size: 94 Copynumber: 2.0 Consensus size: 94
420601 ATCTCTTTTC
* * **
420611 TAAGTCTACAACTCCGTGGCACCTTATTCCCTTT-AAGCCCATAACTCTGTGGCACTCTTTTTCC
1 TAAGTCCACAACTCCGTGGCACCTTATTCCCTTTAAAGCCCACAACTCCATGGCA-TCTTTTTCC
* *
420675 TGTTAAGTTCATAACTCTATGGCACCCTTT
65 TGTTAAGTCCACAACTCTATGGCACCCTTT
* * * ** *
420705 TAAGTCCACAACTCTGTGGCATCTTTTTCTTTTTAAAGCCCACGACTCCATGGCATCTTTTTCCT
1 TAAGTCCACAACTCCGTGGCACCTTATTCCCTTTAAAGCCCACAACTCCATGGCATCTTTTTCCT
* * *
420770 TTTAAGTCCACAACTCTGTGGTACCCTTT
66 GTTAAGTCCACAACTCTATGGCACCCTTT
420799 T
1 T
420800 TCCTTTTAAG
Statistics
Matches: 79, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
94 63 0.80
95 16 0.20
ACGTcount: A:0.21, C:0.29, G:0.13, T:0.38
Consensus pattern (94 bp):
TAAGTCCACAACTCCGTGGCACCTTATTCCCTTTAAAGCCCACAACTCCATGGCATCTTTTTCCT
GTTAAGTCCACAACTCTATGGCACCCTTT
Found at i:420758 original size:61 final size:63
Alignment explanation
Indices: 420642--420815 Score: 183
Period size: 61 Copynumber: 2.7 Consensus size: 63
420632 CCTTATTCCC
* * * ** * *
420642 TTTAAGCCCATAACTCTGTGGCACTCTTTTTCCTGTTAAGTTCATAACTCTATGGCA-C-CCT
1 TTTAAGTCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCATGGCATCTCCT
* *
420703 TTTAAGTCCACAACTCTGTGGCA-TCTTTTTCTTTTTAAAGCCCACGACTCCATGGCATCTTTTT
1 TTTAAGTCCACAACTCTGTGGCACTCTTTTTCCTTTT-AAGCCCACAACTCCATGGCATC----T
420767 CCT
61 CCT
* *
420770 TTTAAGTCCACAACTCTGTGGTACCCTTTTTCCTTTTAAGCCCACA
1 TTTAAGTCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGCCCACA
420816 CCTTCGTGGC
Statistics
Matches: 92, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
60 11 0.12
61 36 0.39
62 1 0.01
67 33 0.36
68 11 0.12
ACGTcount: A:0.21, C:0.29, G:0.12, T:0.39
Consensus pattern (63 bp):
TTTAAGTCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCATGGCATCTCCT
Found at i:420815 original size:34 final size:33
Alignment explanation
Indices: 420399--420834 Score: 175
Period size: 34 Copynumber: 13.7 Consensus size: 33
420389 TTCCTAAAGT
* ** *
420399 CCACAACTCAGTGGCATC-TTTT-CTTCAAAGT
1 CCACAACTCTGTGGCATCTTTTTCCTTTTAAGC
* *
420430 CCACAACTCCGTGGCATCTCTTTT-C---TAAGT
1 CCACAACTCTGTGGCATCT-TTTTCCTTTTAAGC
* * ** *
420460 CCACGACT-TAGTGGCATC-CTTTCCTTCCAAGT
1 CCACAACTCT-GTGGCATCTTTTTCCTTTTAAGC
* * * ** *
420492 CCACGACTCAGTGGCATCTTTTTTCTTCAAAGT
1 CCACAACTCTGTGGCATCTTTTTCCTTTTAAGC
* * * *
420525 CCACGACT-TAGTGACATC-TTTTCC--TAAAGT
1 CCACAACTCT-GTGGCATCTTTTTCCTTTTAAGC
* * ** *
420555 CCACGACTCAGTGGCATC-TTTT-CTTCAAAGT
1 CCACAACTCTGTGGCATCTTTTTCCTTTTAAGC
* * *
420586 CCACAACGCAGTGGCATCTCTTTT-C---TAAGT
1 CCACAACTCTGTGGCATCT-TTTTCCTTTTAAGC
* * * * *
420616 CTACAACTCCGTGGCACCTTATTCCCTTTAAGC
1 CCACAACTCTGTGGCATCTTTTTCCTTTTAAGC
* * *
420649 CCATAACTCTGTGGCACTCTTTTTCCTGTTAAGT
1 CCACAACTCTGTGGCA-TCTTTTTCCTTTTAAGC
* * * *
420683 TCATAACTCTATGGCA-C-----CCTTTTAAGT
1 CCACAACTCTGTGGCATCTTTTTCCTTTTAAGC
*
420710 CCACAACTCTGTGGCATCTTTTTCTTTTTAAAGC
1 CCACAACTCTGTGGCATCTTTTTCCTTTT-AAGC
* ** *
420744 CCACGACTCCATGGCATCTTTTTCCTTTTAAGT
1 CCACAACTCTGTGGCATCTTTTTCCTTTTAAGC
* *
420777 CCACAACTCTGTGGTACCCTTTTTCCTTTTAAGC
1 CCACAACTCTGTGGCA-TCTTTTTCCTTTTAAGC
*
420811 CCACACCT-TCGTGGCATCCTTTTT
1 CCACAACTCT-GTGGCAT-CTTTTT
420835 TTCCTGTAAG
Statistics
Matches: 319, Mismatches: 56, Indels: 57
0.74 0.13 0.13
Matches are distributed among these distances:
27 22 0.07
28 4 0.01
29 5 0.02
30 63 0.20
31 38 0.12
32 26 0.08
33 74 0.23
34 87 0.27
ACGTcount: A:0.21, C:0.30, G:0.14, T:0.35
Consensus pattern (33 bp):
CCACAACTCTGTGGCATCTTTTTCCTTTTAAGC
Found at i:420826 original size:67 final size:68
Alignment explanation
Indices: 420700--420865 Score: 196
Period size: 67 Copynumber: 2.4 Consensus size: 68
420690 TCTATGGCAC
* *
420700 CCTTTTAAGTCCACAACTCTGTGGCATCTTTTTCTTTTTAAAGCCCACGACTCCATGGCAT-CTT
1 CCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCCTTTTAAAGCCCACGACTCCATGGCATCCTT
420764 TTT
66 TTT
* * *
420767 CCTTTTAAGTCCACAACTCTGTGGTACCCTTTTTCCTTTT-AAGCCCAC-ACCTTCGTGGCATCC
1 CCTTTTAAGTCCACAACTCTGTGGCA-CCTTTTTCCTTTTAAAGCCCACGA-CTCCATGGCATCC
420830 TTTTTTT
64 --TTTTT
* * *
420837 CC-TGTAAGTCCAAAACTCCGTGGCACCTT
1 CCTTTTAAGTCCACAACTCTGTGGCACCTT
420866 AAGCCCAATA
Statistics
Matches: 85, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
66 1 0.01
67 42 0.49
68 16 0.19
69 19 0.22
70 7 0.08
ACGTcount: A:0.19, C:0.31, G:0.13, T:0.38
Consensus pattern (68 bp):
CCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCCTTTTAAAGCCCACGACTCCATGGCATCCTT
TTT
Found at i:421117 original size:48 final size:46
Alignment explanation
Indices: 420965--421751 Score: 476
Period size: 48 Copynumber: 17.5 Consensus size: 46
420955 GCCCAATATT
* * *
420965 GCTGGCCTTGAATCAGTATATTGGCTCCTTTATCTTTAAGACCAATGTC
1 GCTGGCCTTGAATCAGCATATTGGC-AC-TTGTC-TTAAGACCAATGTC
* * * * * *
421014 ACTAGCTTTGAATCAGCACATTGGCAC-T-T-TTAAGTCCAATATC
1 GCTGGCCTTGAATCAGCATATTGGCACTTGTCTTAAGACCAATGTC
*
421057 GCTAGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTC
1 GCTGGCCTTGAATCAGCATATTGGCA-CTTGTCT-TAAGACCAATGTC
* * * * * *
421105 GCTGGCTTTGAATCAGCACATTGGCAC--CT-TTAGGTCCAATATC
1 GCTGGCCTTGAATCAGCATATTGGCACTTGTCTTAAGACCAATGTC
*
421148 GCTAGCCTTGAATCAGCATATTGGCACATTGTCTCTAAGACCAATGTC
1 GCTGGCCTTGAATCAGCATATTGGCAC-TTGTCT-TAAGACCAATGTC
*
421196 GCTGGCCTTGAATCAGCATATTGGCA-------TAAGCCCAATGTC
1 GCTGGCCTTGAATCAGCATATTGGCACTTGTCTTAAGACCAATGTC
* * *
421235 GCTGGCCTTGAATCAGCACATTGGCA-------TAAGCCCAATATC
1 GCTGGCCTTGAATCAGCATATTGGCACTTGTCTTAAGACCAATGTC
* *
421274 GTTGGCCTTGAATCAGCATATTGGCATCTTGTCTTTAAGAGCAATGTC
1 GCTGGCCTTGAATCAGCATATTGGCA-CTTGTC-TTAAGACCAATGTC
* * * * * ** * * **
421322 GCTAGCCTTGAATCAACACATTAGCA-TAAG-CCCAATATCGCTG--
1 GCTGGCCTTGAATCAGCATATTGGCACT-TGTCTTAAGACCAATGTC
*
421365 GCTGGCCTTGAATCAGCATATTGACATCTTGTCTTTAAGACCAATGTC
1 GCTGGCCTTGAATCAGCATATTGGCA-CTTGTC-TTAAGACCAATGTC
* * * * * *
421413 ACTGACCTTGAATCAGCACATT---A---G-CATAAGCCCAATATC
1 GCTGGCCTTGAATCAGCATATTGGCACTTGTCTTAAGACCAATGTC
*
421452 GCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAAACCAATGTC
1 GCTGGCCTTGAATCAGCATATTGGCA-CTTGTCT-TAAGACCAATGTC
* * *
421500 GCTGGCCTTGAATCAGCACATTGGCA-------TAAGCCCAATATC
1 GCTGGCCTTGAATCAGCATATTGGCACTTGTCTTAAGACCAATGTC
** ** *
421539 GCTAACCTTGAATCAGCATATTGGCACCTTACCTTTAAGACCAACGTC
1 GCTGGCCTTGAATCAGCATATTGGCA-CTTGTC-TTAAGACCAATGTC
* *
421587 GCTGGCCTTGAATCAGCATATTGGCA-----C--AAGCCCAATATC
1 GCTGGCCTTGAATCAGCATATTGGCACTTGTCTTAAGACCAATGTC
* * * *
421626 ACTGGCCTTGAATCAGCATATTGGCACCTTCATATTTAAGACCGATGTC
1 GCTGGCCTTGAATCAGCATATTGGCA-CTT-GT-CTTAAGACCAATGTC
* * *
421675 GTTGGCCTTGAATCAGCATATTGGCAACTTAACCATCTTTAAGTCCAATGTC
1 GCTGGCCTTGAATCAGCATATTGGC-ACTT----GTC-TTAAGACCAATGTC
* * *
421727 GCCGACCTTGAATCAGCAAATTGGC
1 GCTGGCCTTGAATCAGCATATTGGC
421752 TATCGCTGGC
Statistics
Matches: 577, Mismatches: 102, Indels: 115
0.73 0.13 0.14
Matches are distributed among these distances:
39 170 0.29
40 1 0.00
41 1 0.00
42 2 0.00
43 90 0.16
44 3 0.01
45 12 0.02
46 12 0.02
47 5 0.01
48 189 0.33
49 55 0.10
50 1 0.00
52 36 0.06
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.29
Consensus pattern (46 bp):
GCTGGCCTTGAATCAGCATATTGGCACTTGTCTTAAGACCAATGTC
Found at i:421122 original size:91 final size:89
Alignment explanation
Indices: 420857--421260 Score: 510
Period size: 91 Copynumber: 4.5 Consensus size: 89
420847 CAAAACTCCG
* * *
420857 TGGCACCTTAAGCCCAATATCGCTGGCCTTGAACCAGCATGTTGGCACCTTGTCTTTAAGACCAA
1 TGGCA-CTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAA
**
420922 TGTCTTTGGCCTTGAATCAGCACAT
65 TGTCGCTGGCCTTGAATCAGCACAT
* * * * * *
420947 TGACAC--AAGCCCAATATTGCTGGCCTTGAATCAGTATATTGGCTCCTTTATCTTTAAGACCAA
1 TGGCACTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTCTCTAAGACCAA
* * *
421010 TGTCACTAGCTTTGAATCAGCACAT
65 TGTCGCTGGCCTTGAATCAGCACAT
* *
421035 TGGCACTTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCA
1 TGGCAC--TTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCA
*
421100 ATGTCGCTGGCTTTGAATCAGCACAT
64 ATGTCGCTGGCCTTGAATCAGCACAT
* * * *
421126 TGGCACCTTTAGGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACATTGTCTCTAAGACCA
1 TGGCA-C-TTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCA
*
421191 ATGTCGCTGGCCTTGAATCAGCATAT
64 ATGTCGCTGGCCTTGAATCAGCACAT
* *
421217 TGGCA--TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 TGGCACTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
421261 TAAGCCCAAT
Statistics
Matches: 278, Mismatches: 30, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
87 69 0.25
88 41 0.15
89 1 0.00
90 4 0.01
91 127 0.46
92 36 0.13
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.29
Consensus pattern (89 bp):
TGGCACTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAAT
GTCGCTGGCCTTGAATCAGCACAT
Found at i:421242 original size:39 final size:39
Alignment explanation
Indices: 421183--421651 Score: 317
Period size: 39 Copynumber: 11.0 Consensus size: 39
421173 ACATTGTCTC
*
421183 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCA
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA
*
421222 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA
* *
421261 TAAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCA
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA
** * * * *
421300 TCTTGTCTTTAAGAGCAATGTCGCTAGCCTTGAATCAACACATTAGCA
1 ---------TAAGCCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA
* *
421348 TAAGCCCAATATCGCTGGCTGGCCTTGAATCAGCATATTGACATCTTGTCTT
1 TAAGCCC-A-AT-G-TCGCTGGCCTTGAATCAGCATATTG-------G-C-A
* * * * *
421400 TAAGACCAATGTCACTGACCTTGAATCAGCACATTAGCA
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA
*
421439 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA
** *
421478 CCTTGTCTCTAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 ---------TAAGCCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA
* **
421526 TAAGCCCAATATCGCTAACCTTGAATCAGCATATTGGCACCTTA
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCATATTGG---C--A
* *
421570 CCTTTAAGACCAACGTCGCTGGCCTTGAATCAGCATATTGGCA
1 ----TAAGCCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA
* * *
421613 CAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCA
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA
421652 CCTTCATATT
Statistics
Matches: 336, Mismatches: 54, Indels: 80
0.71 0.11 0.17
Matches are distributed among these distances:
39 176 0.52
40 2 0.01
41 3 0.01
42 2 0.01
43 21 0.06
44 1 0.00
45 1 0.00
48 118 0.35
49 1 0.00
50 3 0.01
51 2 0.01
52 6 0.02
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (39 bp):
TAAGCCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA
Found at i:421307 original size:217 final size:216
Alignment explanation
Indices: 421001--421477 Score: 611
Period size: 217 Copynumber: 2.2 Consensus size: 216
420991 CCTTTATCTT
* * * * *
421001 TAAGACCAATGTCACTAGCTTTGAATCAGCACATTGGCACTTTTAAGTCCAATATCGCTAGCCTT
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA---TTAAGCCCAATATCGCTAGCCTT
* * * *
421066 GAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCTTTGAATCAGCACATTGGCA
63 GAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTAGCCTTGAATCAACACATTAGCA
* * *
421131 CCTTTAGGTCCAATAT-C-GCTAGCCTTGAATCAGCATATTGGCA-CATTGTCTCTAAGACCAAT
128 ----TAAGCCCAATATCCGGCTAGCCTTGAATCAGCATATTGACATC-TTGTCTCTAAGACCAAT
* * * *
421193 GTCGCTGGCCTTGAATCAGCATATTGGCA
188 GTCACTGACCTTGAATCAGCACATTAGCA
* *
421222 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-TAAGCCCAATATCGTTGGCCTTGAA
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTAAGCCCAATATCGCTAGCCTTGAA
* * *
421286 TCAGCATATTGGCATCTTGTCTTTAAGAGCAATGTCGCTAGCCTTGAATCAACACATTAGCATAA
66 TCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTAGCCTTGAATCAACACATTAGCATAA
* *
421351 GCCCAATATCGCTGGCTGGCCTTGAATCAGCATATTGACATCTTGTCTTTAAGACCAATGTCACT
131 GCCCAATATC-C-GGCTAGCCTTGAATCAGCATATTGACATCTTGTCTCTAAGACCAATGTCACT
421416 GACCTTGAATCAGCACATTAGCA
194 GACCTTGAATCAGCACATTAGCA
* *
421439 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
421478 CCTTGTCTCT
Statistics
Matches: 226, Mismatches: 25, Indels: 14
0.85 0.09 0.05
Matches are distributed among these distances:
213 10 0.04
215 1 0.00
217 179 0.79
218 1 0.00
221 35 0.15
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (216 bp):
TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTAAGCCCAATATCGCTAGCCTTGAA
TCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTAGCCTTGAATCAACACATTAGCATAA
GCCCAATATCCGGCTAGCCTTGAATCAGCATATTGACATCTTGTCTCTAAGACCAATGTCACTGA
CCTTGAATCAGCACATTAGCA
Found at i:421320 original size:87 final size:87
Alignment explanation
Indices: 421222--421700 Score: 670
Period size: 87 Copynumber: 5.4 Consensus size: 87
421212 CATATTGGCA
* *
421222 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGTTGGCCTTGAAT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAAT
*
421287 CAGCATATTGGCATCTTGTCTT
66 CAGCATATTGGCACCTTGTCTT
* * * *
421309 TAAGAGCAATGTCGCTAGCCTTGAATCAACACATTAGCATAAGCCCAATATCGCTGGCTGGCCTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATAT--C--GCTGGCCTT
* *
421374 GAATCAGCATATTGACATCTTGTCTT
62 GAATCAGCATATTGGCACCTTGTCTT
* * *
421400 TAAGACCAATGTCACTGACCTTGAATCAGCACATTAGCATAAGCCCAATATCGCTGGCCTTGAAT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAAT
*
421465 CAGCATATTGGCACCTTGTCTC
66 CAGCATATTGGCACCTTGTCTT
* **
421487 TAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTAACCTTGAAT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAAT
**
421552 CAGCATATTGGCACCTTACCTT
66 CAGCATATTGGCACCTTGTCTT
* * * *
421574 TAAGACCAACGTCGCTGGCCTTGAATCAGCATATTGGCACAAGCCCAATATCACTGGCCTTGAAT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAAT
* *
421639 CAGCATATTGGCACCTTCATATT
66 CAGCATATTGGCACCTT-GTCTT
* * *
421662 TAAGACCGATGTCGTTGGCCTTGAATCAGCATATTGGCA
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
421701 ACTTAACCAT
Statistics
Matches: 351, Mismatches: 36, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
87 231 0.66
88 39 0.11
89 2 0.01
91 79 0.23
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (87 bp):
TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAAT
CAGCATATTGGCACCTTGTCTT
Found at i:421684 original size:49 final size:50
Alignment explanation
Indices: 421618--421751 Score: 153
Period size: 52 Copynumber: 2.7 Consensus size: 50
421608 TGGCACAAGC
* * *
421618 CCAATATCACTGGCCTTGAATCAGCATATTGGCACCTT-CATATTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCAACTTACATATTTAAGA
* * * *
421667 CCGATGTCGTTGGCCTTGAATCAGCATATTGGCAACTTAACCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCAACTT-A-CATATTTAAGA
* * *
421719 CCAATGTCGCCGACCTTGAATCAGCAAATTGGC
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGC
421752 TATCGCTGGC
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
49 33 0.47
52 37 0.53
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (50 bp):
CCAATGTCGCTGGCCTTGAATCAGCATATTGGCAACTTACATATTTAAGA
Found at i:421819 original size:49 final size:49
Alignment explanation
Indices: 421752--421885 Score: 151
Period size: 49 Copynumber: 2.7 Consensus size: 49
421742 GCAAATTGGC
* * * * * *
421752 TATCGCTGGCCTTGAATCAGCGTATTGACACCTTTATCTTTAAGACTAA
1 TATCACTGGCCTTAAATCAGCATATTGGCACCTTTATCTTAAAGACCAA
* * * * *
421801 TGTCACTGGCCTTAAATCAGCACATTGGCACCTTCATCTTAAAGTCCGA
1 TATCACTGGCCTTAAATCAGCATATTGGCACCTTTATCTTAAAGACCAA
* *
421850 TATCATTGGCCTTAAATCAGCATATTGGCATCTTTA
1 TATCACTGGCCTTAAATCAGCATATTGGCACCTTTA
421886 ACATTCCTTA
Statistics
Matches: 69, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
49 69 1.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.34
Consensus pattern (49 bp):
TATCACTGGCCTTAAATCAGCATATTGGCACCTTTATCTTAAAGACCAA
Found at i:421819 original size:78 final size:79
Alignment explanation
Indices: 421677--421829 Score: 182
Period size: 78 Copynumber: 1.9 Consensus size: 79
421667 CCGATGTCGT
* * * *
421677 TGGCCTTGAATCAGCATATTGGCAACTTAACCATCTTTAAGTCCAATGTCGCCGACCTTGAATCA
1 TGGCCTTGAATCAGCATATTGACAACTT-A-CATCTTTAAGACCAATGTCACCGACCTTAAATCA
421742 GCAAATTGGCTATCGC
64 GCAAATTGGCTATCGC
* * * * * *
421758 TGGCCTTGAATCAGCGTATTGACACCTT-TATCTTTAAGACTAATGTCACTGGCCTTAAATCAGC
1 TGGCCTTGAATCAGCATATTGACAACTTACATCTTTAAGACCAATGTCACCGACCTTAAATCAGC
*
421822 ACATTGGC
66 AAATTGGC
421830 ACCTTCATCT
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
78 36 0.59
81 25 0.41
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (79 bp):
TGGCCTTGAATCAGCATATTGACAACTTACATCTTTAAGACCAATGTCACCGACCTTAAATCAGC
AAATTGGCTATCGC
Found at i:423380 original size:11 final size:12
Alignment explanation
Indices: 423354--423386 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
423344 TTTTTCCAAA
423354 TTTTCTTAACAT
1 TTTTCTTAACAT
423366 TTTTCTTAACAT
1 TTTTCTTAACAT
423378 TTTTCTTAA
1 TTTTCTTAA
423387 AAAGGCCATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.61
Consensus pattern (12 bp):
TTTTCTTAACAT
Found at i:425967 original size:21 final size:21
Alignment explanation
Indices: 425941--425982 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
425931 GAAAGGTTTA
425941 GTAAGAATGATACCAATATTG
1 GTAAGAATGATACCAATATTG
425962 GTAAGAATGATACCAATATTG
1 GTAAGAATGATACCAATATTG
425983 CCAAAACTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (21 bp):
GTAAGAATGATACCAATATTG
Found at i:430692 original size:3 final size:3
Alignment explanation
Indices: 430684--430732 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
430674 TCAACCATCA
* *
430684 ATG ATG ATG AAG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATA ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
430732 A
1 A
430733 AGTTGACTCG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.31
Consensus pattern (3 bp):
ATG
Found at i:437104 original size:42 final size:42
Alignment explanation
Indices: 437045--437124 Score: 151
Period size: 42 Copynumber: 1.9 Consensus size: 42
437035 CGTTTTTGCT
*
437045 ATAACAAAAAGGGGGAGAAGTATTTTGTAATAAATTTAGGGG
1 ATAACAAAAAGGGGGAGAAGTAATTTGTAATAAATTTAGGGG
437087 ATAACAAAAAGGGGGAGAAGTAATTTGTAATAAATTTA
1 ATAACAAAAAGGGGGAGAAGTAATTTGTAATAAATTTA
437125 TTTTAAGAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.46, C:0.03, G:0.25, T:0.26
Consensus pattern (42 bp):
ATAACAAAAAGGGGGAGAAGTAATTTGTAATAAATTTAGGGG
Found at i:437731 original size:23 final size:21
Alignment explanation
Indices: 437701--437743 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
437691 TTAAGTATAC
437701 ATGTTTTCCAAGCAATAAATAAA
1 ATGTTTT-CAAGCAA-AAATAAA
*
437724 ATGTTTTCAAGTAAAAATAA
1 ATGTTTTCAAGCAAAAATAA
437744 TTCAAAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 6 0.32
23 7 0.37
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.33
Consensus pattern (21 bp):
ATGTTTTCAAGCAAAAATAAA
Found at i:437900 original size:32 final size:33
Alignment explanation
Indices: 437840--437901 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
437830 CACACCCAGA
*
437840 TGTATCGATAAATATTGCTTAGTATCGATATAT
1 TGTATCGATAAATATTGCATAGTATCGATATAT
* *
437873 TGTATCGATACATGTT-CATAGTATCGATA
1 TGTATCGATAAATATTGCATAGTATCGATA
437902 CACCTTGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 12 0.46
33 14 0.54
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.40
Consensus pattern (33 bp):
TGTATCGATAAATATTGCATAGTATCGATATAT
Done.