Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01003596.1 Kokia drynarioides strain JFW-HI SEQ_116477, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 201571
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 32 characters in sequence are not A, C, G, or T
Found at i:9173 original size:17 final size:17
Alignment explanation
Indices: 9153--9188 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
9143 AGTATAAATT
9153 ATTCAAAAATAAAAAAA
1 ATTCAAAAATAAAAAAA
* *
9170 ATTCAAAATTCAAAAAA
1 ATTCAAAAATAAAAAAA
9187 AT
1 AT
9189 ATAAAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (17 bp):
ATTCAAAAATAAAAAAA
Found at i:21732 original size:33 final size:33
Alignment explanation
Indices: 21666--21733 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
21656 AAGGTTACTT
*
21666 GGGGTTGGATCAAATGACGAAGACATTATTATA
1 GGGGTTGGATCAAATGACGAAGACATGATTATA
* *
21699 GGGGTTGGATCTAATGATGAAGACACTGA-TATA
1 GGGGTTGGATCAAATGACGAAGACA-TGATTATA
21732 GG
1 GG
21734 ACATGTATCA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 29 0.94
34 2 0.06
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (33 bp):
GGGGTTGGATCAAATGACGAAGACATGATTATA
Found at i:33302 original size:49 final size:49
Alignment explanation
Indices: 33225--33368 Score: 148
Period size: 50 Copynumber: 2.9 Consensus size: 49
33215 AAACTCTTTT
* * *
33225 ATTTATTATTTAT-ATTTTATTAATTTAATTAATTAAAGATAAAATAATA
1 ATTTAATATTTATCATTTAATTATTTTAATTAATTAAAGATAAAATAA-A
** *
33274 ATTTAATA-TTATCATTTAATTATTTTAATTTAATTAGTGATAATATAAA
1 ATTTAATATTTATCATTTAATTATTTTAA-TTAATTAAAGATAAAATAAA
* * *
33323 ATTTTAATATTTATCACTTTAATTAATTTAAATCAATTAAAAATAA
1 A-TTTAATATTTATCA-TTTAATT-ATTTTAATTAATTAAAGATAA
33369 TGATTATAAT
Statistics
Matches: 78, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
48 4 0.05
49 22 0.28
50 23 0.29
51 6 0.08
52 17 0.22
53 6 0.08
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (49 bp):
ATTTAATATTTATCATTTAATTATTTTAATTAATTAAAGATAAAATAAA
Found at i:33304 original size:14 final size:14
Alignment explanation
Indices: 33271--33309 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
33261 AGATAAAATA
33271 ATAATTTAA-TATT
1 ATAATTTAATTATT
*
33284 ATCATTTAATTATT
1 ATAATTTAATTATT
*
33298 TTAATTTAATTA
1 ATAATTTAATTA
33310 GTGATAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 8 0.36
14 14 0.64
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (14 bp):
ATAATTTAATTATT
Found at i:33361 original size:52 final size:51
Alignment explanation
Indices: 33225--33416 Score: 161
Period size: 49 Copynumber: 3.9 Consensus size: 51
33215 AAACTCTTTT
* *
33225 ATTTATTATTTAT-ATTTTATTAATTT-AATTAATTAAAGATAAAATAATA
1 ATTTAATATTTATCATTTAATTAATTTAAATTAATTAAAGATAAAATAATA
* * ** *
33274 ATTTAATA-TTATCATTTAATTATTTTAATTTAATTAGTGATAATATAA-A
1 ATTTAATATTTATCATTTAATTAATTTAAATTAATTAAAGATAAAATAATA
* *
33323 ATTTTAATATTTATCACTTTAATTAATTTAAATCAATT----A-AAAATAATG
1 A-TTTAATATTTATCA-TTTAATTAATTTAAATTAATTAAAGATAAAATAATA
* * *
33371 ATTATAATATATTATCA-CTAATTAAATTAAAATAATTAAATGATAA
1 ATT-TAATAT-TTATCATTTAATTAATTTAAATTAATTAAA-GATAA
33417 TATTAAATTT
Statistics
Matches: 113, Mismatches: 16, Indels: 24
0.74 0.10 0.16
Matches are distributed among these distances:
47 24 0.21
48 12 0.11
49 26 0.23
50 24 0.21
51 6 0.05
52 19 0.17
53 2 0.02
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (51 bp):
ATTTAATATTTATCATTTAATTAATTTAAATTAATTAAAGATAAAATAATA
Found at i:35224 original size:67 final size:68
Alignment explanation
Indices: 35027--35249 Score: 245
Period size: 70 Copynumber: 3.2 Consensus size: 68
35017 AGAGATTTTT
* * ***
35027 CAACTTCAACATGGCAATAGGAGGACCCATTCTGAACTTTGCAACATCAACATGGCAAGAAGAAC
1 CAACTTCTACATGGC-AGAGGAGGA-CCATTCTGAACTTTGCAACATCAACATGGTGGGAAGAAC
35092 CCTTG
64 CCTTG
* * ** *
35097 CAATTTCAACATGGCGAGAGGAGGGACCATTCCAAACTTTGCAACTTCAACATGGTGGGAAGAAC
1 CAACTTCTACATGGC-AGAGGA-GGACCATTCTGAACTTTGCAACATCAACATGGTGGGAAGAAC
35162 CCTTG
64 CCTTG
* * *
35167 CAACTTCTACATGGC-G-GGAGGACCTAATCTGAACTTTGTAACATCAACATGGTGGGAAGAATC
1 CAACTTCTACATGGCAGAGGAGGACC-ATTCTGAACTTTGCAACATCAACATGGTGGGAAGAACC
*
35230 TTTG
65 CTTG
35234 CAACTT-TAACATGGCA
1 CAACTTCT-ACATGGCA
35250 ATGATCTACC
Statistics
Matches: 131, Mismatches: 18, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
66 6 0.05
67 51 0.39
68 1 0.01
70 70 0.53
71 3 0.02
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.23
Consensus pattern (68 bp):
CAACTTCTACATGGCAGAGGAGGACCATTCTGAACTTTGCAACATCAACATGGTGGGAAGAACCC
TTG
Found at i:38469 original size:21 final size:20
Alignment explanation
Indices: 38449--38503 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
38439 ATTATTTTTG
38449 GTTTTTGTTTTTTTTTATTT
1 GTTTTTGTTTTTTTTTATTT
** * * *
38469 GCATTTGTTTTATTTTGTAT
1 GTTTTTGTTTTTTTTTATTT
38489 GTTGTTTGTTTTTTT
1 GTT-TTTGTTTTTTT
38504 GTGCAGGCCT
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.07, C:0.02, G:0.15, T:0.76
Consensus pattern (20 bp):
GTTTTTGTTTTTTTTTATTT
Found at i:38477 original size:20 final size:20
Alignment explanation
Indices: 38452--38503 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
38442 ATTTTTGGTT
38452 TTTGTTTTTTTT-TAT-TTG
1 TTTGTTTTTTTTGTATGTTG
38470 CATTTGTTTTATTTTGTATGTTG
1 --TTTGTTTT-TTTTGTATGTTG
38493 TTTGTTTTTTT
1 TTTGTTTTTTT
38504 GTGCAGGCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
20 11 0.38
21 12 0.41
22 3 0.10
23 3 0.10
ACGTcount: A:0.08, C:0.02, G:0.13, T:0.77
Consensus pattern (20 bp):
TTTGTTTTTTTTGTATGTTG
Found at i:44420 original size:319 final size:318
Alignment explanation
Indices: 43817--44453 Score: 1112
Period size: 319 Copynumber: 2.0 Consensus size: 318
43807 ACTCAAGTTC
43817 AAAAAGGGTAGAGTCTGTATAGATTACAGGAAGTTGAATTCTTTAACTCGAAAAGATCACTTTCT
1 AAAAAGGGTAGAGTCTGTATAGATTACAGGAAGTTGAATTCTTTAACTCGAAAAGATCACTTTCT
*
43882 AGTTCCTTTTATTGACCAAATACTGGAACATTTAGCTGAAAAATCTCACTATTGCTATCTTGATG
66 AGTTCCTTTTATTGACCAAATACTAGAACATTTAGCTGAAAAATCTCACTATTGCTATCTTGATG
* *
43947 ATTACTCAGGCTTTTTCTAGATCTTGTGGCACTGAAGGACCAAGAGAAGACAGAGTTTACATGTC
131 ATTACTCAGGCTTTTTCCAGATCTTGTGGCACCGAAGGACCAAGAGAAGACAGAGTTTACATGTC
** * *
44012 CTTTGGAACATTCGCCTATAGGCGAATGTTGTTTGAACTTTGCAACGCATCAGCCACATTCCAAA
196 CTTTGGAACATTCGCCTATAGGCGAATACTGTTTGAACTTTGCAACGCATCAACAACATTCCAAA
44077 GGTGTATGGTAAGTATATTTTTCGACTACGTTGAGAAAATAATTGAGGTATTTATGGA
261 GGTGTATGGTAAGTATATTTTTCGACTACGTTGAGAAAATAATTGAGGTATTTATGGA
*
44135 AAAAATGGTAGAGTCTGTATAGATTACAGGAAGTTGAATTCTTTAACTCGAAAAGATCACTTTCT
1 AAAAAGGGTAGAGTCTGTATAGATTACAGGAAGTTGAATTCTTTAACTCGAAAAGATCACTTTCT
* *
44200 AGTTCCTTTTATTGACCAAATACTAGAACGTTTAGCTGAAAAATCTCACTATTGCTGTCTTGATG
66 AGTTCCTTTTATTGACCAAATACTAGAACATTTAGCTGAAAAATCTCACTATTGCTATCTTGATG
* * * * *
44265 GTTACTCAGGTTTTTTTCCAGATCTTGTGGCACCGGAGGACCAAGAGAAGACGGAGTTTACGTGT
131 ATTACTCAGG-CTTTTTCCAGATCTTGTGGCACCGAAGGACCAAGAGAAGACAGAGTTTACATGT
44330 CCTTTGGAACATTCGCCTATAGGCGAATACTGTTTGAACTTTGCAACGCATCAACAACATTCCAA
195 CCTTTGGAACATTCGCCTATAGGCGAATACTGTTTGAACTTTGCAACGCATCAACAACATTCCAA
* *
44395 AGGTTTATGGTAAGTATATTTTTCGACTATGTTGAGAAAATAATTGAGGTATTTATGGA
260 AGGTGTATGGTAAGTATATTTTTCGACTACGTTGAGAAAATAATTGAGGTATTTATGGA
44454 CGACTTTATT
Statistics
Matches: 301, Mismatches: 17, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
318 135 0.45
319 166 0.55
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (318 bp):
AAAAAGGGTAGAGTCTGTATAGATTACAGGAAGTTGAATTCTTTAACTCGAAAAGATCACTTTCT
AGTTCCTTTTATTGACCAAATACTAGAACATTTAGCTGAAAAATCTCACTATTGCTATCTTGATG
ATTACTCAGGCTTTTTCCAGATCTTGTGGCACCGAAGGACCAAGAGAAGACAGAGTTTACATGTC
CTTTGGAACATTCGCCTATAGGCGAATACTGTTTGAACTTTGCAACGCATCAACAACATTCCAAA
GGTGTATGGTAAGTATATTTTTCGACTACGTTGAGAAAATAATTGAGGTATTTATGGA
Found at i:49140 original size:30 final size:30
Alignment explanation
Indices: 49104--49201 Score: 101
Period size: 30 Copynumber: 3.3 Consensus size: 30
49094 GGAATTTTAT
* *
49104 AAAATTT-AGGGGTCAAATTTGAATTTTTGG
1 AAAATTTGAGGGGTAAAATAT-AATTTTTGG
*
49134 AAAATTTGAGGGTTAAAATATAATTTTTGG
1 AAAATTTGAGGGGTAAAATATAATTTTTGG
* * *
49164 AAAGTTTGA-AGGTCAAAATATAATTTTTAG
1 AAAATTTGAGGGGT-AAAATATAATTTTTGG
*
49194 AAAGTTTG
1 AAAATTTG
49202 GGGATCAAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
29 2 0.03
30 47 0.80
31 10 0.17
ACGTcount: A:0.39, C:0.02, G:0.20, T:0.39
Consensus pattern (30 bp):
AAAATTTGAGGGGTAAAATATAATTTTTGG
Found at i:49210 original size:30 final size:30
Alignment explanation
Indices: 49125--49212 Score: 124
Period size: 30 Copynumber: 2.9 Consensus size: 30
49115 GTCAAATTTG
* *
49125 AATTTTTGGAAAATTTGAGGGTTAAAATAT
1 AATTTTTGGAAAGTTTGAGGGTCAAAATAT
*
49155 AATTTTTGGAAAGTTTGAAGGTCAAAATAT
1 AATTTTTGGAAAGTTTGAGGGTCAAAATAT
*
49185 AATTTTTAGAAAGTTTG-GGGATCAAAAT
1 AATTTTTGGAAAGTTTGAGGG-TCAAAAT
49213 TTAAATAATA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
29 2 0.04
30 50 0.96
ACGTcount: A:0.40, C:0.02, G:0.20, T:0.38
Consensus pattern (30 bp):
AATTTTTGGAAAGTTTGAGGGTCAAAATAT
Found at i:58572 original size:17 final size:18
Alignment explanation
Indices: 58552--58600 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
58542 TAAAAACATT
58552 AAATTTGTA-AAGTAAA-A
1 AAATTT-TAGAAGTAAACA
58569 AAATTTTAGAAGTAAACA
1 AAATTTTAGAAGTAAACA
*
58587 AAATTTTACAAGTA
1 AAATTTTAGAAGTA
58601 GATTTATGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 2 0.07
17 13 0.45
18 14 0.48
ACGTcount: A:0.55, C:0.04, G:0.10, T:0.31
Consensus pattern (18 bp):
AAATTTTAGAAGTAAACA
Found at i:63860 original size:23 final size:24
Alignment explanation
Indices: 63834--63886 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
63824 TTAAAATCAC
63834 TAAAAAAAT-AGATTTTTAGTTTT
1 TAAAAAAATAAGATTTTTAGTTTT
**
63857 TAAAAATCTAAGATTTTTAGTTTT
1 TAAAAAAATAAGATTTTTAGTTTT
63881 TAAAAA
1 TAAAAA
63887 TCTAAACTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 7 0.26
24 20 0.74
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (24 bp):
TAAAAAAATAAGATTTTTAGTTTT
Found at i:63874 original size:25 final size:24
Alignment explanation
Indices: 63846--63898 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
63836 AAAAAATAGA
63846 TTTTTAGTTTTTAAAAATCTAAGA-
1 TTTTTAGTTTTTAAAAATCTAA-AC
63870 TTTTTAGTTTTTAAAAATCTAAAC
1 TTTTTAGTTTTTAAAAATCTAAAC
63894 TTTTT
1 TTTTT
63899 TTTTTTACTG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 1 0.04
24 27 0.96
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.55
Consensus pattern (24 bp):
TTTTTAGTTTTTAAAAATCTAAAC
Found at i:63905 original size:23 final size:24
Alignment explanation
Indices: 63843--63891 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
63833 CTAAAAAAAT
63843 AGATTTTTAGTTTTTAAAAATCTA
1 AGATTTTTAGTTTTTAAAAATCTA
63867 AGATTTTTAGTTTTTAAAAATCTA
1 AGATTTTTAGTTTTTAAAAATCTA
63891 A
1 A
63892 ACTTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.04, G:0.08, T:0.49
Consensus pattern (24 bp):
AGATTTTTAGTTTTTAAAAATCTA
Found at i:63990 original size:52 final size:51
Alignment explanation
Indices: 63909--64160 Score: 148
Period size: 52 Copynumber: 5.0 Consensus size: 51
63899 TTTTTTACTG
** *
63909 AAAATCACTACTTTACTTAAAAATCTAAACTTTTATTTCGAAATAGTTAAAA
1 AAAATCAAAACTTTATTTAAAAATCTAAACTTTTATTT-GAAATAGTTAAAA
* * * * **
63961 AAAATCAAAACTTTGTTTAAAAATTTAAACATTTTCTTTAAAATAACT--AA
1 AAAATCAAAACTTTATTTAAAAATCTAAAC-TTTTATTTGAAATAGTTAAAA
** * * * *
64011 AAAA-CAAATTTTTATTTTGAAAAATATAAACATTCTCTTT----T--TTAAAG
1 AAAATCAAAACTTTA-TTT-AAAAATCTAAAC-TTTTATTTGAAATAGTTAAAA
** * * *
64058 AAAATCACTATTTTACTTAAAAATCCAAACTTTTATTTCGAAATAGTTAAAA
1 AAAATCAAAACTTTATTTAAAAATCTAAACTTTTATTT-GAAATAGTTAAAA
* * * * *
64110 AAAATCAAAACTTTATGTAAAAATTTAAAGTTTTCTTTAAAATA--TAAAA
1 AAAATCAAAACTTTATTTAAAAATCTAAACTTTTATTTGAAATAGTTAAAA
64159 AA
1 AA
64161 TACAGATTTT
Statistics
Matches: 152, Mismatches: 35, Indels: 29
0.70 0.16 0.13
Matches are distributed among these distances:
45 7 0.05
46 10 0.07
47 8 0.05
48 7 0.05
49 14 0.09
50 10 0.07
51 24 0.16
52 65 0.43
53 7 0.05
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (51 bp):
AAAATCAAAACTTTATTTAAAAATCTAAACTTTTATTTGAAATAGTTAAAA
Found at i:64217 original size:148 final size:148
Alignment explanation
Indices: 63867--64266 Score: 574
Period size: 148 Copynumber: 2.7 Consensus size: 148
63857 TAAAAATCTA
* * ** *
63867 AGATTTTTAGTTTTTAAAAATCTAAACTTT-TTTTTTTTACTGAAAATCACTACTTTACTTAAAA
1 AGATTTTTA-TTTTTAAAAATATAAACTTTCTCTTTTTTAAAGAAAATCACTATTTTACTTAAAA
* * *
63931 ATCTAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTTTGTTTAAAAATTTAAACATTTT
65 ATCCAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTTTATGTAAAAATTTAAACATTTT
63996 CTTTAAAATAACTAAAAAAC
130 CTTTAAAATAAC-AAAAAAC
* * *
64016 AAATTTTTATTTTGAAAAATATAAACATTCTCTTTTTTAAAGAAAATCACTATTTTACTTAAAAA
1 AGATTTTTATTTTTAAAAATATAAACTTTCTCTTTTTTAAAGAAAATCACTATTTTACTTAAAAA
*
64081 TCCAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTTTATGTAAAAATTTAAA-GTTTTC
66 TCCAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTTTATGTAAAAATTTAAACATTTTC
64145 TTTAAAATATA-AAAAATAC
131 TTTAAAATA-ACAAAAA-AC
64164 AGATTTTTATTTTTAAAAATATAAACTTTCTCTTTTTTAAAGAAAATCACTATTTTACTTAAAAA
1 AGATTTTTATTTTTAAAAATATAAACTTTCTCTTTTTTAAAGAAAATCACTATTTTACTTAAAAA
* * * * *
64229 T-CAAAGTTATTATTTTGAAATTGTTTAAAAAAACCAAA
66 TCCAAACTT-TTATTTCGAAATAGTTAAAAAAAATCAAA
64267 TTTTTTTCCC
Statistics
Matches: 227, Mismatches: 20, Indels: 9
0.89 0.08 0.04
Matches are distributed among these distances:
147 11 0.05
148 121 0.53
149 95 0.42
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.41
Consensus pattern (148 bp):
AGATTTTTATTTTTAAAAATATAAACTTTCTCTTTTTTAAAGAAAATCACTATTTTACTTAAAAA
TCCAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTTTATGTAAAAATTTAAACATTTTC
TTTAAAATAACAAAAAAC
Found at i:64667 original size:51 final size:51
Alignment explanation
Indices: 64605--64822 Score: 126
Period size: 51 Copynumber: 4.3 Consensus size: 51
64595 ATTTTACTTC
*
64605 AAAATCAAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTTGTTTA
1 AAAATCTAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTTGTTTA
* ** * * **
64656 AAAATTTAAACTTTT-TCTTTAAAATCA-CT-AAAAAAT-AGATTTTTAGTTTTTA
1 AAAATCTAAACTTTTAT-TTCGAAAT-AGTTAAAAAAATCAAAACTTT-G--TTTA
* ** ** ** ** **
64708 AAAATCTAAAC-TTTCTTTC--TTTTTTTACTGAAAATCACTACTTTACTTA
1 AAAATCTAAACTTTTATTTCGAAATAGTTA-AAAAAATCAAAACTTTGTTTA
* * *
64757 AAAATCCAAACTTTTATTTTGAAATAGTTAAAAAAATCAAAATTTTGTTTA
1 AAAATCTAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTTGTTTA
*
64808 AAAATTTAAACTTTT
1 AAAATCTAAACTTTT
64823 TCTTTAAATT
Statistics
Matches: 116, Mismatches: 38, Indels: 26
0.64 0.21 0.14
Matches are distributed among these distances:
49 20 0.17
50 15 0.13
51 57 0.49
52 24 0.21
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.42
Consensus pattern (51 bp):
AAAATCTAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTTGTTTA
Found at i:64840 original size:51 final size:50
Alignment explanation
Indices: 64635--64878 Score: 151
Period size: 51 Copynumber: 4.8 Consensus size: 50
64625 GAAATAGTTA
* * * *
64635 AAAAAATCAAAACTTTGTTTAAAAATTTAAACTTTTTCTTTAAAATCACT
1 AAAAAATCAAAATTTTGTTTAAAAATCTAAACTTTTTCTTTAAATTAACT
* * * *
64685 AAAAAAT-AGATTTTTAGTTTTTAAAAATCTAAACTTTCTTTCTTT--TTTTACT
1 AAAAAATCAAAATTTT-G--TTTAAAAATCTAAAC-TT-TTTCTTTAAATTAACT
* ** * ** * **
64737 -GAAAATCACTACTTTACTTAAAAATCCAAACTTTTAT-TTTGAAA-TAGTT
1 AAAAAATCAAAATTTTGTTTAAAAATCTAAACTTTT-TCTTT-AAATTAACT
*
64786 AAAAAAATCAAAATTTTGTTTAAAAATTTAAACTTTTTCTTTAAATTAACT
1 -AAAAAATCAAAATTTTGTTTAAAAATCTAAACTTTTTCTTTAAATTAACT
* * * *
64837 AAAAAA-CAAATTTTTATTTTGAAAAATATAAACTTTCTCTTT
1 AAAAAATCAAAATTTT-GTTT-AAAAATCTAAACTTTTTCTTT
64879 TTCAAATAAA
Statistics
Matches: 145, Mismatches: 33, Indels: 31
0.69 0.16 0.15
Matches are distributed among these distances:
47 5 0.03
48 3 0.02
49 28 0.19
50 21 0.14
51 57 0.39
52 22 0.15
53 2 0.01
54 7 0.05
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (50 bp):
AAAAAATCAAAATTTTGTTTAAAAATCTAAACTTTTTCTTTAAATTAACT
Found at i:64972 original size:148 final size:148
Alignment explanation
Indices: 64556--65095 Score: 712
Period size: 148 Copynumber: 3.6 Consensus size: 148
64546 TTTGTTTTAA
* * * *
64556 AAAAATCAAAAGTTT-TCTTTTGATTAAAATAAAATCACTATTTTACTTCAAAATCAAAACTTTT
1 AAAAATCTAAACTTTCTCTTTT--TT-AAATAAAATCACTATTTTACTTAAAAATCCAAACTTTT
*
64620 ATTTCGAAATAGTTAAAAAAATCAAAACTTTGTTTAAAAATTTAAACTTTTTCTTTAAAATCACT
63 ATTTCGAAATAGTTAAAAAAATCAAAACTTTGTTTAAAAATTTAAACTTTTTCTTTAAAATAACT
*
64685 AAAAAATAGATTTTTAGTTTTT
128 AAAAAACAGATTTTTA-TTTTT
* * *
64707 AAAAATCTAAACTTTCTTTCTTTTTTTACTGAAAATCACTACTTTACTTAAAAATCCAAACTTTT
1 AAAAATCTAAACTTTC--TCTTTTTTAAAT-AAAATCACTATTTTACTTAAAAATCCAAACTTTT
* * *
64772 ATTTTGAAATAGTTAAAAAAATCAAAATTTTGTTTAAAAATTTAAACTTTTTCTTTAAATTAACT
63 ATTTCGAAATAGTTAAAAAAATCAAAACTTTGTTTAAAAATTTAAACTTTTTCTTTAAAATAACT
* *
64837 AAAAAACAAATTTTTATTTTG
128 AAAAAACAGATTTTTATTTTT
* *
64858 AAAAATATAAACTTTCTCTTTTTCAAATAAAATCACTATTTTACTTAAAAATCCAAACTTTTATT
1 AAAAATCTAAACTTTCTCTTTTTTAAATAAAATCACTATTTTACTTAAAAATCCAAACTTTTATT
* * * *
64923 TCGAAATAGTTAAAAAAAAATCAAAACTTTATGTAAAAATTT-AA-GTTTTCTTTAAAATATC-A
66 TCGAAATAGTT--AAAAAAATCAAAACTTTGTTTAAAAATTTAAACTTTTTCTTTAAAATAACTA
64985 AAAATACAGATTTTTATTTTT
129 AAAA-ACAGATTTTTATTTTT
*
65006 AAAAATCTAAACTTTCTCTTTTTTAAAGAAAATCACTATTTTACTTAAAAAT-CAAAGCTTTTAT
1 AAAAATCTAAACTTTCTCTTTTTTAAATAAAATCACTATTTTACTTAAAAATCCAAA-CTTTTAT
* * * *
65070 TTCTAGATTGTTTAAAAAAACCAAAA
65 TTCGAAATAG-TTAAAAAAATCAAAA
65096 TTTTTCCCAA
Statistics
Matches: 345, Mismatches: 35, Indels: 22
0.86 0.09 0.05
Matches are distributed among these distances:
147 21 0.06
148 137 0.40
149 13 0.04
150 26 0.08
151 34 0.10
152 108 0.31
154 6 0.02
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.41
Consensus pattern (148 bp):
AAAAATCTAAACTTTCTCTTTTTTAAATAAAATCACTATTTTACTTAAAAATCCAAACTTTTATT
TCGAAATAGTTAAAAAAATCAAAACTTTGTTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAA
AAACAGATTTTTATTTTT
Found at i:65537 original size:3 final size:3
Alignment explanation
Indices: 65531--65560 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
65521 AATAATAATA
65531 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
65561 CATATATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:65679 original size:175 final size:175
Alignment explanation
Indices: 65383--65735 Score: 645
Period size: 175 Copynumber: 2.0 Consensus size: 175
65373 CATTCATTTC
65383 ATGCATATATATTGTTCATTAATCTTGTTTATTTGTAATTTTTTTGTCATGTTTCATTTGATCTT
1 ATGCATATATATTGTTCATTAATCTTGTTTATTTGTAATTTTTTTGTCATGTTTCATTTGATCTT
65448 TTGATTAATAACTTAGTTCTATTTTGGATGTTTGTGATAGGTGACAAAAGAGAGTTATGGTTTAT
66 TTGATTAATAACTTAGTTCTATTTTGGATGTTTGTGATAGGTGACAAAAGAGAGTTATGGTTTAT
* * * *
65513 GAAAACCTAATAATAATAATGATGATGATGATGATGATGATGATG
131 GAAAACCTAATAATAATAATAATAATAATAATGATGATGATGATG
65558 ATGCATATATATTGTTCATTAATCTTGTTTATTTGTAATTTTTTTGTCATGTTTCATTTGATCTT
1 ATGCATATATATTGTTCATTAATCTTGTTTATTTGTAATTTTTTTGTCATGTTTCATTTGATCTT
65623 TTGATTAATAACTTAGTTCTATTTTGGATGTTTGTGATAGGTGAC-AAAGAAGAGTTATGGTTTA
66 TTGATTAATAACTTAGTTCTATTTTGGATGTTTGTGATAGGTGACAAAAG-AGAGTTATGGTTTA
*
65687 TGAAACCCTAATAATAATAATAATAATAATAATGATGATGATGATG
130 TGAAAACCTAATAATAATAATAATAATAATAATGATGATGATGATG
65733 ATG
1 ATG
65736 ATGATAATGA
Statistics
Matches: 172, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
174 4 0.02
175 168 0.98
ACGTcount: A:0.31, C:0.07, G:0.17, T:0.45
Consensus pattern (175 bp):
ATGCATATATATTGTTCATTAATCTTGTTTATTTGTAATTTTTTTGTCATGTTTCATTTGATCTT
TTGATTAATAACTTAGTTCTATTTTGGATGTTTGTGATAGGTGACAAAAGAGAGTTATGGTTTAT
GAAAACCTAATAATAATAATAATAATAATAATGATGATGATGATG
Found at i:65703 original size:3 final size:3
Alignment explanation
Indices: 65695--65719 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
65685 TATGAAACCC
65695 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
65720 GATGATGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:65724 original size:3 final size:3
Alignment explanation
Indices: 65718--65755 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
65708 AATAATAATA
*
65718 ATG ATG ATG ATG ATG ATG ATG ATA ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
65756 TTGGGCCCGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.37, C:0.00, G:0.29, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:66186 original size:42 final size:42
Alignment explanation
Indices: 66124--66241 Score: 159
Period size: 42 Copynumber: 2.8 Consensus size: 42
66114 AATAAATAGA
* * *
66124 TAAATGGATCTCTACTCTTAGGCCTCT-AATTGCAATGAAAAG
1 TAAATGGACCTCCACACTTAGGCCTCTGAA-TGCAATGAAAAG
66166 TAAATGGACCTCCACACTTAGGCCTCTGAATGCAATGAAAAG
1 TAAATGGACCTCCACACTTAGGCCTCTGAATGCAATGAAAAG
* * *
66208 TAAAT-GACCTCCACACCTGGGCCTCCGAATGCAA
1 TAAATGGACCTCCACACTTAGGCCTCTGAATGCAA
66242 ACACCTGGGC
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
41 26 0.38
42 41 0.59
43 2 0.03
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (42 bp):
TAAATGGACCTCCACACTTAGGCCTCTGAATGCAATGAAAAG
Found at i:66245 original size:22 final size:22
Alignment explanation
Indices: 66220--66263 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
66210 AATGACCTCC
66220 ACACCTGGGCCTCCGAATGCAA
1 ACACCTGGGCCTCCGAATGCAA
66242 ACACCTGGGCCTCCGAATGCAA
1 ACACCTGGGCCTCCGAATGCAA
66264 TGAAAAGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.36, G:0.23, T:0.14
Consensus pattern (22 bp):
ACACCTGGGCCTCCGAATGCAA
Found at i:66263 original size:105 final size:106
Alignment explanation
Indices: 66154--66347 Score: 302
Period size: 105 Copynumber: 1.8 Consensus size: 106
66144 GGCCTCTAAT
* *
66154 TGCAATGAAAAGTAAATGGACCTCCACACTTAGGCC-TCTGAATGCAATGAAAAGTAAAT-GACC
1 TGCAATGAAAAGTAAATAGACCTCCACACCTAGGCCTTC-GAATGCAATGAAAAGTAAATGGACC
*
66217 TCCACACCTGGGCCTCCGAATGCAAACACCTGGGCCTCCGAA
65 TCCACACCTGAGCCTCCGAATGCAAACACCTGGGCCTCCGAA
* *
66259 TGCAATGAAAAGTAAATAGACCTCTACACCTGGGCCTTCGAATGCAATGAAAAGTAAATGGACCT
1 TGCAATGAAAAGTAAATAGACCTCCACACCTAGGCCTTCGAATGCAATGAAAAGTAAATGGACCT
* *
66324 CCACACTTGAGCCTCTGAATGCAA
66 CCACACCTGAGCCTCCGAATGCAA
66348 TGAAAAGTAA
Statistics
Matches: 80, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
105 52 0.65
106 28 0.35
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.20
Consensus pattern (106 bp):
TGCAATGAAAAGTAAATAGACCTCCACACCTAGGCCTTCGAATGCAATGAAAAGTAAATGGACCT
CCACACCTGAGCCTCCGAATGCAAACACCTGGGCCTCCGAA
Found at i:66301 original size:42 final size:42
Alignment explanation
Indices: 66242--66897 Score: 821
Period size: 42 Copynumber: 15.6 Consensus size: 42
66232 CCGAATGCAA
** * *
66242 ACACCTGGGCCTCCGAATGCAATGAAAAGTAAATAGACCTCT
1 ACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCC
*
66284 ACACCTGGGCCT-TCGAATGCAATGAAAAGTAAATGGACCTCC
1 ACACCTGGGCCTCT-AAATGCAATGAAAAGTAAATGGACCTCC
* * * *
66326 ACACTTGAGCCTCTGAATGCAATGAAAAGTAAATGGGCCTCC
1 ACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCC
* *
66368 ACACCTGGGCTTCTAAATGCAATGAAAAGTAAATGGGCCTCC
1 ACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCC
* * *
66410 ACACTTGGGCCTCTAAATGCTATGAAAATTAAATGGACCTCC
1 ACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCC
* * * * *
66452 ACACTTGGGCATTTAAATACAATGAAAATTAAATGGACCTCC
1 ACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCC
* * *
66494 GCACCTGGGCCTCTAAATACAATGAAAAGTAAATGGATCTCC
1 ACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCC
* * *
66536 ACACCTAGGCCTCTAAATGCAATGAAAAGTGAATGGGCCTCC
1 ACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCC
* * *
66578 ACACTTGGGCCTCTAAATGCTATGAAAATTAAATGGACCTCC
1 ACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCC
* *
66620 ACACCTGGGCCTCCAAATACAATGAAAAGTAAATGGACCTCC
1 ACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCC
* * * * *
66662 ATACTTGGGCTTGTAAATGCAATGAAAAGTAAATGGGCCTCC
1 ACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCC
* * *
66704 ACACCTAGGCCTCTAAATGCAATGAAAAGTAAATGGGCCTTC
1 ACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCC
* * *
66746 ATACTTGGGCCTCTAAATGCAAT-AACAAGTAAATGGGCCTCC
1 ACACCTGGGCCTCTAAATGCAATGAA-AAGTAAATGGACCTCC
* * * *
66788 ATACCTGGACTTCTAAATGCAATGAAAAGTAAATGGGCCTCC
1 ACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCC
* * * *
66830 AAACCTAGGCCTCTAAATACAATGAAAAGTAAATAGACCTCC
1 ACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCC
* *
66872 ACACCTAGGCCTCTAAATGTAATGAA
1 ACACCTGGGCCTCTAAATGCAATGAA
66898 TGTTTTCCTT
Statistics
Matches: 538, Mismatches: 72, Indels: 8
0.87 0.12 0.01
Matches are distributed among these distances:
41 2 0.00
42 533 0.99
43 3 0.01
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.22
Consensus pattern (42 bp):
ACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCC
Found at i:66304 original size:64 final size:63
Alignment explanation
Indices: 66186--66305 Score: 204
Period size: 64 Copynumber: 1.9 Consensus size: 63
66176 TCCACACTTA
*
66186 GGCCTCTGAATGCAATGAAAAGTAAATGACCTCCACACCTGGGCCTCCGAATGCAAACACCTG
1 GGCCTCCGAATGCAATGAAAAGTAAATGACCTCCACACCTGGGCCTCCGAATGCAAACACCTG
* *
66249 GGCCTCCGAATGCAATGAAAAGTAAATAGACCTCTACACCTGGGCCTTCGAATGCAA
1 GGCCTCCGAATGCAATGAAAAGTAAAT-GACCTCCACACCTGGGCCTCCGAATGCAA
66306 TGAAAAGTAA
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
63 26 0.49
64 27 0.51
ACGTcount: A:0.33, C:0.28, G:0.21, T:0.18
Consensus pattern (63 bp):
GGCCTCCGAATGCAATGAAAAGTAAATGACCTCCACACCTGGGCCTCCGAATGCAAACACCTG
Found at i:67331 original size:12 final size:12
Alignment explanation
Indices: 67316--67398 Score: 60
Period size: 14 Copynumber: 6.3 Consensus size: 12
67306 CTTTTCCTTC
*
67316 TTTTTTTGTTTT
1 TTTTTTTATTTT
67328 TTTTTTCTATTTT
1 TTTTTT-TATTTT
* *
67341 TTCTTCTATTTT
1 TTTTTTTATTTT
67353 TTATTATTTATTTAT
1 TT-TT-TTTATTT-T
67368 TTTTTTCT-TCTTCT
1 TTTTTT-TAT-TT-T
67382 TTTTTTGTATTTT
1 TTTTTT-TATTTT
67395 TTTT
1 TTTT
67399 CTTGATTTAA
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
12 14 0.25
13 18 0.32
14 21 0.37
15 4 0.07
ACGTcount: A:0.08, C:0.07, G:0.02, T:0.82
Consensus pattern (12 bp):
TTTTTTTATTTT
Found at i:67353 original size:31 final size:31
Alignment explanation
Indices: 67298--67400 Score: 111
Period size: 32 Copynumber: 3.2 Consensus size: 31
67288 CCTACTCTTA
*
67298 TTTTCTATCTTTTCCTTCTTTTTTTGTTTTTT
1 TTTTCTAT-TTTTTCTTCTTTTTTTGTTTTTT
*
67330 TTTTCTATTTTTTCTTCTATTTTTTATTATTTAT
1 TTTTCTATTTTTTCTTCT-TTTTTTGTT-TTT-T
*
67364 TTATT-T-TTTTCTTCTTCTTTTTTTGTATTTT
1 TT-TTCTATTTT-TTCTTCTTTTTTTGTTTTTT
67395 TTTTCT
1 TTTTCT
67401 TGATTTAAAC
Statistics
Matches: 61, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
30 2 0.03
31 13 0.21
32 19 0.31
33 14 0.23
34 11 0.18
35 2 0.03
ACGTcount: A:0.08, C:0.12, G:0.02, T:0.79
Consensus pattern (31 bp):
TTTTCTATTTTTTCTTCTTTTTTTGTTTTTT
Found at i:75365 original size:4 final size:4
Alignment explanation
Indices: 75351--75420 Score: 88
Period size: 4 Copynumber: 17.5 Consensus size: 4
75341 TAAATAAACA
* * *
75351 AATG AACG AATG AATG AAGG AATG AGTG AATG AATCG -ATG AATG AATG
1 AATG AATG AATG AATG AATG AATG AATG AATG AAT-G AATG AATG AATG
*
75399 AATG AACG AATG AATG AATG AA
1 AATG AATG AATG AATG AATG AA
75421 ATTGGGGCAC
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
3 1 0.02
4 54 0.96
5 1 0.02
ACGTcount: A:0.49, C:0.04, G:0.27, T:0.20
Consensus pattern (4 bp):
AATG
Found at i:77949 original size:17 final size:17
Alignment explanation
Indices: 77929--77969 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
77919 TTCCATTACG
77929 TACACGATAACATTTGC
1 TACACGATAACATTTGC
77946 TACACGATAACATTTGC
1 TACACGATAACATTTGC
77963 TACACGA
1 TACACGA
77970 ACATCTATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (17 bp):
TACACGATAACATTTGC
Found at i:79751 original size:24 final size:23
Alignment explanation
Indices: 79709--79758 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
79699 CGGTGGCCGA
** *
79709 AAATTTTTATTTTTTTTTAAATC
1 AAATTTTTATTTTGATTTAAAAC
79732 AAATGTTTTATTTTGATTTAAAAC
1 AAAT-TTTTATTTTGATTTAAAAC
79756 AAA
1 AAA
79759 ATCACTACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (23 bp):
AAATTTTTATTTTGATTTAAAAC
Found at i:80086 original size:143 final size:148
Alignment explanation
Indices: 79756--80102 Score: 485
Period size: 143 Copynumber: 2.4 Consensus size: 148
79746 GATTTAAAAC
* * *
79756 AAAATCACTACTTTACTTCAAAATCAAAACTTTTATTTCAAAATAGTT-AAAAAAATCAAAACTT
1 AAAATCACTATTTTACTTAAAAATC-AAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTT
79820 TGTTTAAAAATTTAAACTTTTTCTTTAAAATAACTTAAAAATAAATTTTTATTTTGAAAAATATA
65 TGTTTAAAAATTTAAACTTTTTCTTTAAAATAACTTAAAAATAAATTTTTATTTTGAAAAATATA
79885 AACTTTCTCTTTTTTAAAG
130 AACTTTCTCTTTTTTAAAG
* * **
79904 AAAATCACTATTTTATTTAAAAAACCAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAATTTT
1 AAAATCACTATTTTACTT-AAAAATCAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAA-ACT
* * * *
79969 TTTTTTAAAATTTTAAA-TTTTTCTTTAAAATAAC-T-AAAA-AAA-TTTTATTTTTAAAAATCT
64 TTGTTTAAAAATTTAAACTTTTTCTTTAAAATAACTTAAAAATAAATTTTTATTTTGAAAAATAT
80029 AAACTTT-T-TTTTTTAAAG
129 AAACTTTCTCTTTTTTAAAG
* *
80047 AAAATCACTATTTTACTTAAAAATCAAAGGTTTTATTTCGAAATTGTTAAAAAAAA
1 AAAATCACTATTTTACTTAAAAATCAAA-CTTTTATTTCGAAATAGTTAAAAAAAA
80103 AAACCAAAAC
Statistics
Matches: 180, Mismatches: 15, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
142 9 0.05
143 52 0.29
144 1 0.01
145 23 0.13
146 3 0.02
147 4 0.02
148 38 0.21
149 34 0.19
150 16 0.09
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.42
Consensus pattern (148 bp):
AAAATCACTATTTTACTTAAAAATCAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTTT
GTTTAAAAATTTAAACTTTTTCTTTAAAATAACTTAAAAATAAATTTTTATTTTGAAAAATATAA
ACTTTCTCTTTTTTAAAG
Found at i:80856 original size:13 final size:13
Alignment explanation
Indices: 80831--80864 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
80821 ATTTTAACCT
*
80831 TTAATTAAACTTAC
1 TTAATT-AACTTAA
80845 TTAATTAACTTAA
1 TTAATTAACTTAA
80858 TTAATTA
1 TTAATTA
80865 TAAGCAAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (13 bp):
TTAATTAACTTAA
Found at i:81263 original size:59 final size:59
Alignment explanation
Indices: 81171--81291 Score: 233
Period size: 59 Copynumber: 2.1 Consensus size: 59
81161 AAAATCGGGT
*
81171 CATTTCATTATAAAGAAAGTAGTTGGCAATATGATTACTAATGAAAATACCAAGAAAAA
1 CATTTCATTATAAAGAAAGTAGTTGACAATATGATTACTAATGAAAATACCAAGAAAAA
81230 CATTTCATTATAAAGAAAGTAGTTGACAATATGATTACTAATGAAAATACCAAGAAAAA
1 CATTTCATTATAAAGAAAGTAGTTGACAATATGATTACTAATGAAAATACCAAGAAAAA
81289 CAT
1 CAT
81292 CATATACAAT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.50, C:0.11, G:0.12, T:0.27
Consensus pattern (59 bp):
CATTTCATTATAAAGAAAGTAGTTGACAATATGATTACTAATGAAAATACCAAGAAAAA
Found at i:111424 original size:26 final size:27
Alignment explanation
Indices: 111395--111447 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
111385 TATATAATAT
* *
111395 AATAAATACATTTAAAA-ACAATAAAA
1 AATAAACAAATTTAAAATACAATAAAA
*
111421 AATAAACAAATTTAAAATACATTAAAA
1 AATAAACAAATTTAAAATACAATAAAA
111448 TTTCTTTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.25
Consensus pattern (27 bp):
AATAAACAAATTTAAAATACAATAAAA
Found at i:111623 original size:12 final size:12
Alignment explanation
Indices: 111579--111625 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
111569 ATAACATCCA
*
111579 AACAATAAAAAC
1 AACAACAAAAAC
*
111591 AACAACTAAAAC
1 AACAACAAAAAC
*
111603 AACAACAAAAAT
1 AACAACAAAAAC
*
111615 AACAGCAAAAA
1 AACAACAAAAA
111626 AAAGCAGAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.72, C:0.19, G:0.02, T:0.06
Consensus pattern (12 bp):
AACAACAAAAAC
Found at i:113273 original size:18 final size:17
Alignment explanation
Indices: 113242--113276 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
113232 GGTTTAGGGT
113242 TTAAATTTTTTAATTAA
1 TTAAATTTTTTAATTAA
113259 TTAAATTTATTTAATTAA
1 TTAAATTT-TTTAATTAA
113277 AGATTTATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTAAATTTTTTAATTAA
Found at i:119176 original size:52 final size:53
Alignment explanation
Indices: 119082--119293 Score: 216
Period size: 52 Copynumber: 4.0 Consensus size: 53
119072 CAATGGGACA
* * **
119082 CACAAAAGCCCATGCTCTCAAAGGAGCACGCAAAATTCGTCATACAGAAAGCT
1 CACAAAAGCTCATGCTCTCAAAGGAGCACGCAAAGTGAGTCATACAGAAAGCT
* * *
119135 CACAAAAGCTCATGCTAT-AAAGGACCACGCAGAGTGAGTCATACAGAAAGCT
1 CACAAAAGCTCATGCTCTCAAAGGAGCACGCAAAGTGAGTCATACAGAAAGCT
** * * *** * *
119187 CACAAAATTTCTTGCTCTCAAA-AAGCATATAAAGTGAGTCATACAAAAATCT
1 CACAAAAGCTCATGCTCTCAAAGGAGCACGCAAAGTGAGTCATACAGAAAGCT
* *
119239 CACAAAACCTCATGCTCTC-AAGGATCACGCAAAGTGAGTCACTCACA-AAAGCT
1 CACAAAAGCTCATGCTCTCAAAGGAGCACGCAAAGTGAGTCA-T-ACAGAAAGCT
119292 CA
1 CA
119294 TGCTCTCAAA
Statistics
Matches: 127, Mismatches: 28, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
51 2 0.02
52 95 0.75
53 27 0.21
54 3 0.02
ACGTcount: A:0.41, C:0.25, G:0.16, T:0.18
Consensus pattern (53 bp):
CACAAAAGCTCATGCTCTCAAAGGAGCACGCAAAGTGAGTCATACAGAAAGCT
Found at i:119298 original size:43 final size:44
Alignment explanation
Indices: 119237--119321 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 44
119227 ATACAAAAAT
*
119237 CTCACAAAACCTCATGCTCTC-AAGGATCACGCAA-AGTGAGTCA
1 CTCACAAAACCTCATGCTCTCAAAGGAACACG-AAGAGTGAGTCA
*
119280 CTCACAAAAGCTCATGCTCTCAAAGGAACACGAAGAGTGAGT
1 CTCACAAAACCTCATGCTCTCAAAGGAACACGAAGAGTGAGT
119322 TGTATAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
43 22 0.58
44 16 0.42
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.18
Consensus pattern (44 bp):
CTCACAAAACCTCATGCTCTCAAAGGAACACGAAGAGTGAGTCA
Found at i:120364 original size:29 final size:29
Alignment explanation
Indices: 120331--120402 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 29
120321 AACTGGCAAA
* **
120331 CACAAGTTCACCTCACAGACTGGCGAACC
1 CACAAGCTCACCAAACAGACTGGCGAACC
*
120360 CACAAGCTCACCAAAGAGACTGGCGAACC
1 CACAAGCTCACCAAACAGACTGGCGAACC
*
120389 CACAAGCTCGCCAA
1 CACAAGCTCACCAA
120403 CACATTAGTG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.35, C:0.38, G:0.18, T:0.10
Consensus pattern (29 bp):
CACAAGCTCACCAAACAGACTGGCGAACC
Found at i:122912 original size:31 final size:31
Alignment explanation
Indices: 122876--122934 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
122866 GTCCAAAAAA
*
122876 CATATAAAATTAGACCCAATACAGGAGAAGC
1 CATATAAAATTAGACCCAATACAAGAGAAGC
122907 CATATAAAATTAGACCCAATACAAGAGA
1 CATATAAAATTAGACCCAATACAAGAGA
122935 GGCCCAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.51, C:0.19, G:0.14, T:0.17
Consensus pattern (31 bp):
CATATAAAATTAGACCCAATACAAGAGAAGC
Found at i:125320 original size:195 final size:194
Alignment explanation
Indices: 124931--125377 Score: 553
Period size: 195 Copynumber: 2.3 Consensus size: 194
124921 GAAATCGACG
* * *
124931 CGATGGCTGGGGTACCGCATATGTTGCGAGTCCTTGACAGCTCGTGTGAGCAGTATCATGAGTTG
1 CGATGGCTGGGGTACCGCATATGTTGCGAGTCCTAGACAGCTCGTGTGAGCAGCATCATGACTTG
* * * *
124996 GGAAATGAGAAAAGAATCCAAGAATGGATTACAGGCCCTACGATGGCTGAGATTTATGCATAAGT
66 GGAAA-GAGAAAAGAATCCAAGAATGAATTACAAGCCCTACAATGGCTGAGATCTATGCATAAGT
* * * * *
125061 GCATATTCTCGACAGCTCGTGTGAGCAGCATCGTCAAGGAATAGTTATATGCATAGATACCGTAT
130 GCATACTCTCGACAGCTCGTGTGAGCAGCATCGTCAAGGAACAGTTATATACACAGACACCGTAT
* * * *
125126 CGATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGATAGCTCGTGTGAGCAGCATCGTGACTT-
1 CGATGGCTGGGGTACCGCATATGTTGCGAGTCCTAGACAGCTCGTGTGAGCAGCATCATGACTTG
* * * *
125190 GGAAA-AGAAATATGGATCCTA-AATGAATTACAAGCCCTACAATGGCTGAGA-CTATGCTTTA-
66 GGAAAGAGAAA-A-GAATCCAAGAATGAATTACAAGCCCTACAATGGCTGAGATCTATGCATAAG
* * *
125251 TGCATACTCTCGACAGCTCGTGTGAGCAGCATCGTTAGGGAACAGTTTATAGTACAGACAGGCAC
129 TGCATACTCTCGACAGCTCGTGTGAGCAGCATCGTCAAGGAACAG-TTATA-TAC--ACAGACAC
125316 CGTAT
190 CGTAT
* * * *
125321 CGATGGCTGGGGTACCGTATACGTTGTGAGTCCTAGACAACTCGTGTGAGCAGCATC
1 CGATGGCTGGGGTACCGCATATGTTGCGAGTCCTAGACAGCTCGTGTGAGCAGCATC
125378 TTGTACTGGT
Statistics
Matches: 217, Mismatches: 29, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
191 41 0.19
192 17 0.08
193 30 0.14
194 11 0.05
195 118 0.54
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (194 bp):
CGATGGCTGGGGTACCGCATATGTTGCGAGTCCTAGACAGCTCGTGTGAGCAGCATCATGACTTG
GGAAAGAGAAAAGAATCCAAGAATGAATTACAAGCCCTACAATGGCTGAGATCTATGCATAAGTG
CATACTCTCGACAGCTCGTGTGAGCAGCATCGTCAAGGAACAGTTATATACACAGACACCGTAT
Found at i:125581 original size:18 final size:19
Alignment explanation
Indices: 125548--125583 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
125538 AAATATGTTA
*
125548 TTGTTGTTTTGTAGATTGT
1 TTGTTGTTTTGAAGATTGT
125567 TTGTTG-TTTGAAGATTG
1 TTGTTGTTTTGAAGATTG
125584 GATTATCTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.14, C:0.00, G:0.28, T:0.58
Consensus pattern (19 bp):
TTGTTGTTTTGAAGATTGT
Found at i:126911 original size:20 final size:19
Alignment explanation
Indices: 126872--126911 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
126862 AAATAGTGAG
*
126872 AATTTATTTTCTAAGTATA
1 AATTTATTTTCTAAGAATA
*
126891 AATTATATTTTCTAGGAATA
1 AATT-TATTTTCTAAGAATA
126911 A
1 A
126912 CAATTCTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.47
Consensus pattern (19 bp):
AATTTATTTTCTAAGAATA
Found at i:127553 original size:60 final size:60
Alignment explanation
Indices: 127485--127604 Score: 222
Period size: 60 Copynumber: 2.0 Consensus size: 60
127475 TTGTGGATTA
127485 TCATCTACTTGTAAATTTTATTTTATTTATTTTAGAAAAATTCATGTGACCCTAAAACAG
1 TCATCTACTTGTAAATTTTATTTTATTTATTTTAGAAAAATTCATGTGACCCTAAAACAG
**
127545 TCATCTACTTGTAGGTTTTATTTTATTTATTTTAGAAAAATTCATGTGACCCTAAAACAG
1 TCATCTACTTGTAAATTTTATTTTATTTATTTTAGAAAAATTCATGTGACCCTAAAACAG
127605 ACTTGAGTTT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.43
Consensus pattern (60 bp):
TCATCTACTTGTAAATTTTATTTTATTTATTTTAGAAAAATTCATGTGACCCTAAAACAG
Found at i:133909 original size:90 final size:88
Alignment explanation
Indices: 133754--134026 Score: 338
Period size: 90 Copynumber: 3.0 Consensus size: 88
133744 TTAAGGGTGT
*
133754 AAAAAGCCCTCAAACTTTTTTAAGAAAAGCAATTAAGCCCCTACTTTTATTTTGTACTCACTTGA
1 AAAAAGCCCTCAAAC-TTTTTAA-AAAAGCAATTAAGCCCCTACTTTTATTTTGTACTCAATTGA
*
133819 GTACTTGAACTTTCAAAATGCATAAA
64 GTACTTGAACTTTCAAAATACAT-AA
133845 AACAAAGCCCTCAAAC-TTTTAAAAAGAGCAATTAAGCCCCTACTTTTATTTTGTACTCAATTGA
1 AA-AAAGCCCTCAAACTTTTTAAAAA-AGCAATTAAGCCCCTACTTTTATTTTGTACTCAATTGA
133909 GTACTTGAACTTTCAAAATACATAA
64 GTACTTGAACTTTCAAAATACATAA
* * * * * *
133934 AAAAGGCCCTTAAACTTTTTCAAAAAAAGCAATTAAGCCCCCGA-TTTTTTTTTGCAGTCAATTT
1 AAAAAGCCCTCAAACTTTTT--AAAAAAGCAATTAAG-CCCCTACTTTTATTTTGTACTCAA-TT
* * *
133998 G-GTACTTAAATTTTC-AAATACATCA
62 GAGTACTTGAACTTTCAAAATACATAA
134023 AAAA
1 AAAA
134027 GGTCATTTGA
Statistics
Matches: 164, Mismatches: 11, Indels: 16
0.86 0.06 0.08
Matches are distributed among these distances:
88 11 0.07
89 24 0.15
90 101 0.62
91 15 0.09
92 13 0.08
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (88 bp):
AAAAAGCCCTCAAACTTTTTAAAAAAGCAATTAAGCCCCTACTTTTATTTTGTACTCAATTGAGT
ACTTGAACTTTCAAAATACATAA
Found at i:134167 original size:9 final size:9
Alignment explanation
Indices: 134132--134238 Score: 58
Period size: 10 Copynumber: 11.4 Consensus size: 9
134122 CATGTGGCAA
134132 AAAAATTAT
1 AAAAATTAT
134141 AAAAA--AT
1 AAAAATTAT
*
134148 -AAAATCAAT
1 AAAAAT-TAT
134157 AAAAATTAT
1 AAAAATTAT
134166 AAAAATTATT
1 AAAAATTA-T
**
134176 AAATTTTAAT
1 AAAAATT-AT
*
134186 AAAAAAATAT
1 -AAAAATTAT
*
134196 AAAAATAAAT
1 AAAAAT-TAT
**
134206 AAATTTTATT
1 AAAAATTA-T
*
134216 AAAAATTAGA
1 AAAAATTA-T
134226 AAAAATTAT
1 AAAAATTAT
134235 AAAA
1 AAAA
134239 TAATCAAAAA
Statistics
Matches: 73, Mismatches: 16, Indels: 18
0.68 0.15 0.17
Matches are distributed among these distances:
6 4 0.05
7 2 0.03
9 27 0.37
10 35 0.48
11 5 0.07
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:134190 original size:29 final size:29
Alignment explanation
Indices: 134154--134239 Score: 100
Period size: 30 Copynumber: 2.9 Consensus size: 29
134144 AAATAAAATC
134154 AATAAAAATTATAAAAATTATTAAATTTT
1 AATAAAAATTATAAAAATTATTAAATTTT
* * *
134183 AATAAAAAAATATAAAAATAAATAAATTTT
1 AAT-AAAAATTATAAAAATTATTAAATTTT
* * *
134213 ATTAAAAATTAGAAAAAATTATAAAAT
1 AATAAAAATTA-TAAAAATTATTAAAT
134240 AATCAAAAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
29 10 0.22
30 36 0.78
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (29 bp):
AATAAAAATTATAAAAATTATTAAATTTT
Found at i:134523 original size:91 final size:91
Alignment explanation
Indices: 134329--134567 Score: 320
Period size: 91 Copynumber: 2.6 Consensus size: 91
134319 TAGGGGATGT
* * * * * *
134329 TCAAGTACCCAATTGATTGCAAAAAAAAAATAGGGGTTTAATTGC-TT-TTTAAAAAAAGTTTGA
1 TCAAGTACCCAATTGAGTGCAAAATAAAAGTAGGGGCTTAATTGCTTTCTTTGAAAAAAGTTTAA
* * * * **
134392 GGGTCTTTTTGATGCATTTTGAAAGT
66 GAGCCTTTTTAATACATTTTGAAAAC
*
134418 TCAAGTACCAAATTGAGTGCAAAATAAAAGTAGGGGCTTAATTGCTTTCTTTGAAAAAAGTTTAA
1 TCAAGTACCCAATTGAGTGCAAAATAAAAGTAGGGGCTTAATTGCTTTCTTTGAAAAAAGTTTAA
134483 GAGCCTTTTTAATACATTTTGAAAAC
66 GAGCCTTTTTAATACATTTTGAAAAC
* * *
134509 TCAAATACCCAATTGAGTACAAAATAAAAGTAGGGACTTAATTGCTTTCTTTGAAAAAA
1 TCAAGTACCCAATTGAGTGCAAAATAAAAGTAGGGGCTTAATTGCTTTCTTTGAAAAAA
134568 ATTGAGGAAT
Statistics
Matches: 131, Mismatches: 17, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
89 40 0.31
90 2 0.02
91 89 0.68
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (91 bp):
TCAAGTACCCAATTGAGTGCAAAATAAAAGTAGGGGCTTAATTGCTTTCTTTGAAAAAAGTTTAA
GAGCCTTTTTAATACATTTTGAAAAC
Found at i:137088 original size:104 final size:102
Alignment explanation
Indices: 136816--137099 Score: 318
Period size: 104 Copynumber: 2.7 Consensus size: 102
136806 ACCATGAGTC
* * * * *
136816 AGTGATTACTTAGTAGGCTTTGAGTCCGTGATTACTTAGGAGGCTTTGAGCTCGTGGTTATTTAA
1 AGTGATTACTTAGCAGGCTTTGAG-CCGTGATTATTTAGAAGGCTTTGAGC-CGTGATTATTTAG
* * *
136881 CAGACTTTTAGCTGATGGTTATTTAGCAAGCTTTGACTT
64 TAGACTTTGAGCCGATGGTTATTTAGCAAGCTTTGACTT
* * * * *
136920 GGTGATTACTTAGCAGGCTTTGAGTCGGTGATTTTTTTGTAGGCTTTGAGCCTGTGATTATTTAG
1 AGTGATTACTTAGCAGGCTTTGAG-CCGTGATTATTTAGAAGGCTTTGAGCC-GTGATTATTTAG
* * *
136985 TAGACTTTGATCCGGTGGTTATTTAGCAGGCTTTGAGC-T
64 TAGACTTTGAGCCGATGGTTATTTAGCAAGCTTTGA-CTT
* * *
137024 AGTGATTACTTAGCAGGTTTTAAGCCAGTGATTATTTAGAAGGCTTTGAACCGGTGATTATTTAG
1 AGTGATTACTTAGCAGGCTTTGAGCC-GTGATTATTTAGAAGGCTTTGAGCC-GTGATTATTTAG
*
137089 TAGGCTTTGAG
64 TAGACTTTGAG
137100 TCGGTAAATT
Statistics
Matches: 151, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
103 2 0.01
104 148 0.98
105 1 0.01
ACGTcount: A:0.21, C:0.12, G:0.27, T:0.39
Consensus pattern (102 bp):
AGTGATTACTTAGCAGGCTTTGAGCCGTGATTATTTAGAAGGCTTTGAGCCGTGATTATTTAGTA
GACTTTGAGCCGATGGTTATTTAGCAAGCTTTGACTT
Found at i:137104 original size:26 final size:26
Alignment explanation
Indices: 136810--137104 Score: 220
Period size: 26 Copynumber: 11.3 Consensus size: 26
136800 TAGCAGACCA
* * *
136810 TGAGTCAGTGATTACTTAGTAGGCTT
1 TGAGTCGGTGATTATTTAGCAGGCTT
* * *
136836 TGAGTCCGTGATTACTTAGGAGGCTT
1 TGAGTCGGTGATTATTTAGCAGGCTT
* * *
136862 TGAGCTC-GTGGTTATTTAACAGACTT
1 TGAG-TCGGTGATTATTTAGCAGGCTT
* * * *
136888 TTAG-CTGATGGTTATTTAGCAAGCTT
1 TGAGTC-GGTGATTATTTAGCAGGCTT
* * *
136914 TGACTTGGTGATTACTTAGCAGGCTT
1 TGAGTCGGTGATTATTTAGCAGGCTT
* * *
136940 TGAGTCGGTGATTTTTTTGTAGGCTT
1 TGAGTCGGTGATTATTTAGCAGGCTT
* * * *
136966 TGAGCCTGTGATTATTTAGTAGACTT
1 TGAGTCGGTGATTATTTAGCAGGCTT
*
136992 TGA-TCCGGTGGTTATTTAGCAGGCTT
1 TGAGT-CGGTGATTATTTAGCAGGCTT
* * *
137018 TGAG-CTAGTGATTACTTAGCAGGTTT
1 TGAGTC-GGTGATTATTTAGCAGGCTT
* * * *
137044 TAAGCCAGTGATTATTTAGAAGGCTT
1 TGAGTCGGTGATTATTTAGCAGGCTT
** *
137070 TGAACCGGTGATTATTTAGTAGGCTT
1 TGAGTCGGTGATTATTTAGCAGGCTT
137096 TGAGTCGGT
1 TGAGTCGGT
137105 AAATTTTTAT
Statistics
Matches: 212, Mismatches: 49, Indels: 16
0.77 0.18 0.06
Matches are distributed among these distances:
24 1 0.00
25 1 0.00
26 207 0.98
27 3 0.01
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.39
Consensus pattern (26 bp):
TGAGTCGGTGATTATTTAGCAGGCTT
Found at i:141387 original size:64 final size:63
Alignment explanation
Indices: 141348--141480 Score: 182
Period size: 63 Copynumber: 2.1 Consensus size: 63
141338 ATTTATGATG
* *
141348 TATTTATATATGTA-CATACATATATATAAAAATAATAAAAAT-AAAATCAAAATGTATATCTA
1 TATTTATATATATACCATACATATATA-AAAAATAATAAAAATAAAAATCAAAATGTATATATA
* *
141410 TATTTATATATATACTCATACGTATATAAAAAATAATAAAAAT-AAAATCAAGATGTATATATA
1 TATTTATATATATAC-CATACATATATAAAAAATAATAAAAATAAAAATCAAAATGTATATATA
*
141473 TATATATA
1 TATTTATA
141481 CATGCGTATA
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
62 13 0.20
63 40 0.62
64 11 0.17
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (63 bp):
TATTTATATATATACCATACATATATAAAAAATAATAAAAATAAAAATCAAAATGTATATATA
Found at i:141585 original size:15 final size:13
Alignment explanation
Indices: 141565--141623 Score: 50
Period size: 13 Copynumber: 4.3 Consensus size: 13
141555 CATTACATAT
141565 TTTGTTCTTTTGTTC
1 TTTG-TCTTTT-TTC
141580 TTTGT-TTTTTTC
1 TTTGTCTTTTTTC
141592 TTCTCTGTC-TTTTTC
1 -T-T-TGTCTTTTTTC
*
141607 TTTGTCTTTTCTC
1 TTTGTCTTTTTTC
141620 TTTG
1 TTTG
141624 CAGGTGATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
12 7 0.18
13 15 0.39
14 3 0.08
15 13 0.34
ACGTcount: A:0.00, C:0.17, G:0.10, T:0.73
Consensus pattern (13 bp):
TTTGTCTTTTTTC
Found at i:142448 original size:43 final size:42
Alignment explanation
Indices: 142351--142744 Score: 339
Period size: 43 Copynumber: 9.1 Consensus size: 42
142341 CACCAAGAAG
142351 ATGACTTCAATCTATCCCTCTTGACTTAGGGGTAAAAGATTGGAA
1 ATGACTTCAATCTA-CCCTCTTGA-TTAGGGGTAAAAGATTGG-A
* *
142396 AGGTCTTCAATCTACCTCTCTTGATTAGGGGTAAAAGATTGGA
1 ATGACTTCAATCTACC-CTCTTGATTAGGGGTAAAAGATTGGA
* * * *
142439 ATGACTTCAATCTGCCCCTCTT-AGTTTGGGGTAAAAGCTTGAA
1 ATGACTTCAATCT-ACCCTCTTGA-TTAGGGGTAAAAGATTGGA
* *
142482 AT--CTTCAATCTGCCCCTTTTGATTAGGGGTAAAAGATTGGA
1 ATGACTTCAATCT-ACCCTCTTGATTAGGGGTAAAAGATTGGA
* * * * * *
142523 ACGACTTCAATATGCCCCCTTGATTAAGGGTAAAAGATTGAA
1 ATGACTTCAATCTACCCTCTTGATTAGGGGTAAAAGATTGGA
*
142565 AT--CTTCAATCTGACCCTTTTGACTTAGGGGTAAAAGATTGGA
1 ATGACTTCAATCT-ACCCTCTTGA-TTAGGGGTAAAAGATTGGA
* * * * * *
142607 TGACGACTTCAATTTTCCCCTTTTGACTTAAGGGTAAAATATTGGA
1 --ATGACTTCAA-TCTACCCTCTTGA-TTAGGGGTAAAAGATTGGA
* * * * *
142653 AGGTCTTCAATCTACCCCTCTTGACTAGGGGTGAAATATTGGA
1 ATGACTTCAATCTA-CCCTCTTGATTAGGGGTAAAAGATTGGA
* * * * *
142696 AGGTCTTCAATCTGTCCCTCTTGACTAGAGGTAAAAGATTGGA
1 ATGACTTCAATCT-ACCCTCTTGATTAGGGGTAAAAGATTGGA
142739 ATGACT
1 ATGACT
142745 GCAGTTTTAA
Statistics
Matches: 289, Mismatches: 45, Indels: 32
0.79 0.12 0.09
Matches are distributed among these distances:
40 8 0.03
41 41 0.14
42 44 0.15
43 103 0.36
44 39 0.13
45 19 0.07
46 33 0.11
47 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (42 bp):
ATGACTTCAATCTACCCTCTTGATTAGGGGTAAAAGATTGGA
Found at i:142509 original size:84 final size:86
Alignment explanation
Indices: 142353--142739 Score: 430
Period size: 84 Copynumber: 4.5 Consensus size: 86
142343 CCAAGAAGAT
** * *
142353 GACTTCAATCTATCCCTCTTGACTTAGGGGTAAAAGATTGGAAAGGTCTTCAATCTACCTCTCTT
1 GACTTCAATCTGCCCCTCTTGACTTAAGGGTAAAAGATTGGAAA--TCTTCAATCTACCCCTCTT
*
142418 GATTAGGGGTAAAAGATTGGAAT
64 GATTAGGGGTAAAAGATTGGAAC
* ** * * *
142441 GACTTCAATCTGCCCCTCTT-AGTTTGGGGTAAAAGCTT-GAAATCTTCAATCTGCCCCTTTTGA
1 GACTTCAATCTGCCCCTCTTGACTTAAGGGTAAAAGATTGGAAATCTTCAATCTACCCCTCTTGA
142504 TTAGGGGTAAAAGATTGGAAC
66 TTAGGGGTAAAAGATTGGAAC
* *
142525 GACTTCAATATGCCCC-CTTGA-TTAAGGGTAAAAGATT-GAAATCTTCAATCTGA-CCCTTTTG
1 GACTTCAATCTGCCCCTCTTGACTTAAGGGTAAAAGATTGGAAATCTTCAATCT-ACCCCTCTTG
142586 ACTTAGGGGTAAAAGATTGGATGAC
65 A-TTAGGGGTAAAAGATTGGA--AC
* * * * *
142611 GACTTCAATTTTCCCCTTTTGACTTAAGGGTAAAATATTGGAAGGTCTTCAATCTACCCCTCTTG
1 GACTTCAATCTGCCCCTCTTGACTTAAGGGTAAAAGATTGGAA-ATCTTCAATCTACCCCTCTTG
* * * *
142676 ACTAGGGGTGAAATATTGGAAG
65 ATTAGGGGTAAAAGATTGGAAC
* *
142698 GTCTTCAATCTGTCCCTCTTGAC-T-AGAGGTAAAAGATTGGAA
1 GACTTCAATCTGCCCCTCTTGACTTAAG-GGTAAAAGATTGGAA
142740 TGACTGCAGT
Statistics
Matches: 258, Mismatches: 30, Indels: 24
0.83 0.10 0.08
Matches are distributed among these distances:
83 39 0.15
84 73 0.28
85 2 0.01
86 35 0.14
87 38 0.15
88 33 0.13
89 20 0.08
90 18 0.07
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (86 bp):
GACTTCAATCTGCCCCTCTTGACTTAAGGGTAAAAGATTGGAAATCTTCAATCTACCCCTCTTGA
TTAGGGGTAAAAGATTGGAAC
Found at i:142997 original size:49 final size:49
Alignment explanation
Indices: 142944--143076 Score: 146
Period size: 50 Copynumber: 2.7 Consensus size: 49
142934 AGGTTCACCA
* * *
142944 TTGCGGCCTCAACCTTTCCCTCCACATCTTCATGGTA-TTGGATTTGCCG
1 TTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCTGG-TTTGCCG
* *
142993 TTGCGGCCTCAATCC-TT-CCTATCAAATCTTCTAAGGTACCTGGTTTGCTG
1 TTGCGGCCTCAA-CCTTTCCCT-TCAAATCTTC-ATGGTACCTGGTTTGCCG
* *
143043 TTGTGGCCTCAACCTTTCCCTTCATATCTTCATG
1 TTGCGGCCTCAACCTTTCCCTTCAAATCTTCATG
143077 TTTCCTTGGT
Statistics
Matches: 70, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
48 3 0.04
49 26 0.37
50 35 0.50
51 6 0.09
ACGTcount: A:0.16, C:0.31, G:0.17, T:0.37
Consensus pattern (49 bp):
TTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCTGGTTTGCCG
Found at i:144035 original size:14 final size:15
Alignment explanation
Indices: 144016--144047 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
144006 CAACCTCTCC
144016 TTTTTGTTTTT-TTA
1 TTTTTGTTTTTATTA
144030 TTTTTGTTTTTATTA
1 TTTTTGTTTTTATTA
144045 TTT
1 TTT
144048 ATTTTTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.09, C:0.00, G:0.06, T:0.84
Consensus pattern (15 bp):
TTTTTGTTTTTATTA
Found at i:148556 original size:2 final size:2
Alignment explanation
Indices: 148549--148574 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
148539 ACATACATAC
148549 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
148575 GATGAATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:149862 original size:15 final size:14
Alignment explanation
Indices: 149842--149899 Score: 50
Period size: 15 Copynumber: 4.2 Consensus size: 14
149832 CGTTACATAT
149842 TTTGTTCTTTTGTTC
1 TTTG-TCTTTTGTTC
* *
149857 TTTGTTTTTTTCTTC
1 TTTG-TCTTTTGTTC
*
149872 TCTGTC-TTT-TTC
1 TTTGTCTTTTGTTC
149884 TTTGTCTTTTG-TC
1 TTTGTCTTTTGTTC
149897 TTT
1 TTT
149900 ACAGGTGCTT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
12 8 0.22
13 11 0.31
14 1 0.03
15 16 0.44
ACGTcount: A:0.00, C:0.16, G:0.10, T:0.74
Consensus pattern (14 bp):
TTTGTCTTTTGTTC
Found at i:153564 original size:52 final size:52
Alignment explanation
Indices: 153403--153589 Score: 221
Period size: 52 Copynumber: 3.6 Consensus size: 52
153393 TAAATGACTA
*
153403 AGGTCCGATGACTATGTGTCATCATGAGTTTATGAATCCTTTATGGATTATG
1 AGGTCCGATGACTATGTGTCATCATGAGTATATGAATCCTTTATGGATTATG
* * *
153455 AGATCCGATGACTATGCGTCATCATGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCATGAGTATATGAATCCTTTATGGATTATG
* * * * * * ** *
153507 AGGTCCGATGACTATGTGCCATCGTGAGTGTATGATTTCTTTATGTAACAAG
1 AGGTCCGATGACTATGTGTCATCATGAGTATATGAATCCTTTATGGATTATG
* * **
153559 CGGTCCTATGACTATGTGTCATTGTGAGTAT
1 AGGTCCGATGACTATGTGTCATCATGAGTAT
153590 TAAATGAAAT
Statistics
Matches: 114, Mismatches: 21, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
52 114 1.00
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.36
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCATGAGTATATGAATCCTTTATGGATTATG
Found at i:166273 original size:27 final size:27
Alignment explanation
Indices: 166210--166264 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
166200 ATGCCATAAG
166210 ATCGAGTGATGCAAAAACTACCAACAA
1 ATCGAGTGATGCAAAAACTACCAACAA
166237 ATCGAGTGATGCAAAAACTACCAACAA
1 ATCGAGTGATGCAAAAACTACCAACAA
166264 A
1 A
166265 CTCCGTGATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.49, C:0.22, G:0.15, T:0.15
Consensus pattern (27 bp):
ATCGAGTGATGCAAAAACTACCAACAA
Found at i:168035 original size:48 final size:50
Alignment explanation
Indices: 167959--168092 Score: 175
Period size: 48 Copynumber: 2.7 Consensus size: 50
167949 TCTGATAACA
*
167959 ATGTGTCATCATGAGTATATGAATCCTTTACGGATTAT-GAGATCC-GA-T
1 ATGTGTCATCATGAGTATATGAATCCTTTACGGATTATAAAG-TCCTGACT
* *
168007 ATGTTTCATCATGAGTATATGAATCCTTTATGGATTATAAAGTCCTATGACT
1 ATGTGTCATCATGAGTATATGAATCCTTTACGGATTATAAAGTCC--TGACT
* *
168059 ATGTGTCATCATGAGTATATGATTCCTTCACGGA
1 ATGTGTCATCATGAGTATATGAATCCTTTACGGA
168093 ACAAGCGGCC
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
48 39 0.53
49 2 0.03
51 2 0.03
52 31 0.42
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (50 bp):
ATGTGTCATCATGAGTATATGAATCCTTTACGGATTATAAAGTCCTGACT
Found at i:168641 original size:21 final size:21
Alignment explanation
Indices: 168611--168650 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
168601 TGAAATTCTT
*
168611 CATACCTGTTTCAGTAGAACC
1 CATACATGTTTCAGTAGAACC
*
168632 CATACATGTTTCGGTAGAA
1 CATACATGTTTCAGTAGAA
168651 GTGTAGGGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (21 bp):
CATACATGTTTCAGTAGAACC
Found at i:173692 original size:61 final size:62
Alignment explanation
Indices: 173549--173695 Score: 174
Period size: 61 Copynumber: 2.4 Consensus size: 62
173539 GTAAATGCAA
* * ** * *
173549 AAAGGTCCAATGAC-TTAGAGTCATCGTGGGTATTGAATGAGAAATGAATCCTATTAAGGATT
1 AAAGGTCCGATGACATT-GTGTCATCGTCAGTATTAAATGAGAAATGAATCCTACTAAGGATT
* *
173611 AAAGGTCTGATGACATTGTGTCATCGTCAGTATTAAATGAG-AATGAATCCTACTATGGATT
1 AAAGGTCCGATGACATTGTGTCATCGTCAGTATTAAATGAGAAATGAATCCTACTAAGGATT
*
173672 AAAGGTCCGGTGAC-TCTGTGTCAT
1 AAAGGTCCGATGACAT-TGTGTCAT
173696 TGTAAGTTAT
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
60 1 0.01
61 38 0.52
62 32 0.44
63 2 0.03
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.31
Consensus pattern (62 bp):
AAAGGTCCGATGACATTGTGTCATCGTCAGTATTAAATGAGAAATGAATCCTACTAAGGATT
Found at i:180528 original size:62 final size:62
Alignment explanation
Indices: 180425--180599 Score: 210
Period size: 61 Copynumber: 2.8 Consensus size: 62
180415 CCGTAAATGC
* * *
180425 TAAACGGTCCGATGACTTAGAGTCATCGTGAGTATTGAATGAGAAATGAATCCTATTAAGGAT
1 TAAA-GGTCCGATGACTTTGTGTCATCGTGAGTATTAAATGAGAAATGAATCCTATTAAGGAT
* * * *
180488 TAAAGGTCCAATGACTTTGTGTCATCGTCAGTATTAAATGAG-AATGAATTCTATTATGGAT
1 TAAAGGTCCGATGACTTTGTGTCATCGTGAGTATTAAATGAGAAATGAATCCTATTAAGGAT
* * * *
180549 TAAAGG-CCTGGTGACTTTGTGTCATCGTGAGTTATCAAATGTGAATTGAAT
1 TAAAGGTCC-GATGACTTTGTGTCATCGTGAG-TATTAAATGAGAAATGAAT
180600 TCAATAACGA
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
60 2 0.02
61 42 0.44
62 42 0.44
63 10 0.10
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.33
Consensus pattern (62 bp):
TAAAGGTCCGATGACTTTGTGTCATCGTGAGTATTAAATGAGAAATGAATCCTATTAAGGAT
Found at i:180564 original size:61 final size:61
Alignment explanation
Indices: 180425--180601 Score: 203
Period size: 62 Copynumber: 2.8 Consensus size: 61
180415 CCGTAAATGC
* * * * *
180425 TAAACGGTCCGATGACTTAGAGTCATCGTGAGTATTGAATGAGAAATGAATCCTATTAAGGAT
1 TAAA-GGTCCAATGACTTTGTGTCATCGTGAGTATTAAATGAG-AATGAATTCTATTAAGGAT
* *
180488 TAAAGGTCCAATGACTTTGTGTCATCGTCAGTATTAAATGAGAATGAATTCTATTATGGAT
1 TAAAGGTCCAATGACTTTGTGTCATCGTGAGTATTAAATGAGAATGAATTCTATTAAGGAT
** * *
180549 TAAAGG-CCTGGTGACTTTGTGTCATCGTGAGTTATCAAATGTGAATTGAATTC
1 TAAAGGTCC-AATGACTTTGTGTCATCGTGAG-TATTAAATGAGAA-TGAATTC
180602 AATAACGAGT
Statistics
Matches: 99, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
60 2 0.02
61 42 0.42
62 44 0.44
63 11 0.11
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.33
Consensus pattern (61 bp):
TAAAGGTCCAATGACTTTGTGTCATCGTGAGTATTAAATGAGAATGAATTCTATTAAGGAT
Found at i:182817 original size:20 final size:19
Alignment explanation
Indices: 182784--182837 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
182774 ATAAAGATGG
182784 AAAAT-ATAAAAATTATTT
1 AAAATAATAAAAATTATTT
182802 AAAATAATAGAAAATTATTT
1 AAAATAATA-AAAATTATTT
182822 ATAAATAA-AAAAATTA
1 A-AAATAATAAAAATTA
182838 GAATTTAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.15
19 10 0.30
20 12 0.36
21 6 0.18
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAATAATAAAAATTATTT
Found at i:182849 original size:32 final size:32
Alignment explanation
Indices: 182812--182872 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
182802 AAAATAATAG
* *
182812 AAAATTATTTATAAA-TAAAAAAATTAGAATTT
1 AAAATT-TTTAAAAATTAAAAAAATGAGAATTT
*
182844 AAAATTTTTAAAAATTATAAAAATGAGAA
1 AAAATTTTTAAAAATTAAAAAAATGAGAA
182873 AACTATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 7 0.28
32 18 0.72
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (32 bp):
AAAATTTTTAAAAATTAAAAAAATGAGAATTT
Found at i:186706 original size:17 final size:16
Alignment explanation
Indices: 186684--186717 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
186674 CGCTCTTTTT
*
186684 TTTGTTCTCTTATTCTC
1 TTTGTTCT-TTACTCTC
186701 TTTGTTCTTTACTCTC
1 TTTGTTCTTTACTCTC
186717 T
1 T
186718 GTCCTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.06, C:0.24, G:0.06, T:0.65
Consensus pattern (16 bp):
TTTGTTCTTTACTCTC
Found at i:186789 original size:17 final size:18
Alignment explanation
Indices: 186752--186790 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
186742 AAGATTTATT
* *
186752 AAAAATAATTAAAATTGC
1 AAAAATAATTAAAAGTAC
186770 AAAAA-AATTAAAAGTAC
1 AAAAATAATTAAAAGTAC
186787 AAAA
1 AAAA
186791 GTATAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.21
Consensus pattern (18 bp):
AAAAATAATTAAAAGTAC
Found at i:187190 original size:19 final size:17
Alignment explanation
Indices: 187150--187207 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 17
187140 TTGTATTCCA
187150 TATAATTTTTA-ATTTT
1 TATAATTTTTATATTTT
187166 TAATAATTTTATATTATTTT
1 T-ATAATTTT-TA-TATTTT
187186 TATAATTTTTGAATATTTT
1 TATAATTTTT--ATATTTT
187205 TAT
1 TAT
187208 TTTTTCAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
16 1 0.03
17 8 0.22
18 3 0.08
19 17 0.47
20 7 0.19
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (17 bp):
TATAATTTTTATATTTT
Found at i:187193 original size:9 final size:9
Alignment explanation
Indices: 187150--187195 Score: 51
Period size: 10 Copynumber: 5.1 Consensus size: 9
187140 TTGTATTCCA
187150 TATAA-TTT
1 TATAATTTT
187158 T-TAATTTT
1 TATAATTTT
187166 TAATAATTTT
1 T-ATAATTTT
*
187176 ATATTATTTT
1 -TATAATTTT
187186 TATAATTTT
1 TATAATTTT
187195 T
1 T
187196 GAATATTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
7 3 0.09
8 5 0.16
9 9 0.28
10 14 0.44
11 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TATAATTTT
Found at i:187203 original size:29 final size:26
Alignment explanation
Indices: 187155--187212 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 26
187145 TTCCATATAA
187155 TTTTTAATTTTTAATAATTTTATATTAT
1 TTTTTAATTTTTAATAATTTT-TATT-T
187183 TTTTATAATTTTTGAAT-ATTTTTATTT
1 TTTT-TAATTTTT-AATAATTTTTATTT
187210 TTT
1 TTT
187213 CAAAATTCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
27 4 0.14
28 8 0.29
29 13 0.46
30 3 0.11
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.71
Consensus pattern (26 bp):
TTTTTAATTTTTAATAATTTTTATTT
Found at i:187961 original size:16 final size:19
Alignment explanation
Indices: 187918--187960 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
187908 TTTTCTCATG
*
187918 TTATGATTCCAATGAAATA
1 TTATTATTCCAATGAAATA
187937 TTATTATTCCAATGAAATA
1 TTATTATTCCAATGAAATA
187956 TTATT
1 TTATT
187961 CTTTAGAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (19 bp):
TTATTATTCCAATGAAATA
Found at i:196082 original size:24 final size:24
Alignment explanation
Indices: 196049--196169 Score: 188
Period size: 24 Copynumber: 5.0 Consensus size: 24
196039 CACTTTCTTT
*
196049 AGGTGACAATTCTTTTGTTACCTG
1 AGGTGGCAATTCTTTTGTTACCTG
*
196073 GGGTGGCAATTCTTTTGTTACCTG
1 AGGTGGCAATTCTTTTGTTACCTG
* *
196097 TGGTGGCAATTCTTCTGTTACCTG
1 AGGTGGCAATTCTTTTGTTACCTG
*
196121 AGGTGGCAATTCTTCTGTTACCTG
1 AGGTGGCAATTCTTTTGTTACCTG
*
196145 AGGTGGCAATTCTTTTGTTTCCTG
1 AGGTGGCAATTCTTTTGTTACCTG
196169 A
1 A
196170 AACTCAAGTT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 90 1.00
ACGTcount: A:0.16, C:0.18, G:0.25, T:0.41
Consensus pattern (24 bp):
AGGTGGCAATTCTTTTGTTACCTG
Done.