Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 9 of 189
Found at i:3007928 original size:21 final size:21
Alignment explanation
Indices: 3007902--3007973 Score: 92
Period size: 21 Copynumber: 3.4 Consensus size: 21
3007892 TATACAAATG
3007902 AATTTAACA-TCAATTTAATAC
1 AATTT-ACATTCAATTTAATAC
3007923 AATTTACATTCAATTTAATAC
1 AATTTACATTCAATTTAATAC
* * *
3007944 AAGTTACATTCAATTCAATCC
1 AATTTACATTCAATTTAATAC
*
3007965 AATTCACAT
1 AATTTACAT
3007974 CTTAGGCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
20 3 0.07
21 42 0.93
ACGTcount: A:0.43, C:0.18, G:0.01, T:0.38
Consensus pattern (21 bp):
AATTTACATTCAATTTAATAC
Found at i:3008847 original size:6 final size:6
Alignment explanation
Indices: 3008836--3008870 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
3008826 ATCTCTTCTC
3008836 TTTTTA TTTTTA TTTTTA TTTTT- TTGTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TT-TTTA TTTTT
3008871 TATCTTCTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 2 0.07
6 23 0.85
7 2 0.07
ACGTcount: A:0.11, C:0.00, G:0.03, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:3009730 original size:3 final size:3
Alignment explanation
Indices: 3009722--3009777 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
3009712 TTCACTTTAC
3009722 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
3009770 ATT ATT AT
1 ATT ATT AT
3009778 GTATATCTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:3016752 original size:37 final size:37
Alignment explanation
Indices: 3016710--3016903 Score: 262
Period size: 37 Copynumber: 5.0 Consensus size: 37
3016700 GGTAGTTTTA
3016710 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
**
3016747 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
* *
3016784 GTTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
*
3016821 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAA---GT-G
*
3016862 CTTAGCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTG
1 ----GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
3016903 G
1 G
3016904 TAGCCTAGCT
Statistics
Matches: 140, Mismatches: 9, Indels: 16
0.85 0.05 0.10
Matches are distributed among these distances:
37 102 0.73
40 2 0.01
41 2 0.01
42 2 0.01
45 32 0.23
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
Found at i:3016801 original size:74 final size:78
Alignment explanation
Indices: 3016674--3016903 Score: 279
Period size: 74 Copynumber: 2.9 Consensus size: 78
3016664 TTTGAGTACT
** *
3016674 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAAACAAAGTGATAAGTGG-AG--CTA--TACACTTATCTGATCAAGTGACAAAGT
3016739 GATAAGTGGCTACACTTA
61 GATAAGTGGCTACACTTA
*
3016757 TCTGATCAAGAAACAAAGTGATAAGT-G-G-T-TACACTTATCTGATCAAGAGACAAAGTGATAA
1 TCTGATCAAGAAACAAAGTGATAAGTGGAGCTATACACTTATCTGATCAAGTGACAAAGTGATAA
3016818 GTGGCTACACTTA
66 GTGGCTACACTTA
** * *
3016831 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGGCAAAGTG
1 TCTGATCAAGAAACAAAGTGATAAGTGG-AGC-TA--TACACTTATCTGATCAAGTGACAAAGTG
3016896 ATAAGTGG
62 ATAAGTGG
3016904 TAGCCTAGCT
Statistics
Matches: 131, Mismatches: 8, Indels: 17
0.84 0.05 0.11
Matches are distributed among these distances:
74 67 0.51
75 1 0.01
77 2 0.02
79 1 0.01
80 1 0.01
82 35 0.27
83 24 0.18
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (78 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGAGCTATACACTTATCTGATCAAGTGACAAAGTGATAA
GTGGCTACACTTA
Found at i:3016872 original size:45 final size:44
Alignment explanation
Indices: 3016821--3016943 Score: 194
Period size: 45 Copynumber: 2.8 Consensus size: 44
3016811 GTGATAAGTG
*
3016821 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTA
1 GCTACACTTATCTGATCAAGTGA-AAAGTGATAAGTGGTAGCCTA
*
3016866 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCTA
1 GCTACACTTATCTGATCAAGT-GAAAAGTGATAAGTGGTAGCCTA
*
3016911 GCTACACTTATCTGATCAAG-GACAAGTGATAAG
1 GCTACACTTATCTGATCAAGTGAAAAGTGATAAG
3016944 AGGTCATATG
Statistics
Matches: 73, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
43 11 0.15
45 61 0.84
46 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (44 bp):
GCTACACTTATCTGATCAAGTGAAAAGTGATAAGTGGTAGCCTA
Found at i:3024455 original size:37 final size:37
Alignment explanation
Indices: 3024413--3024561 Score: 226
Period size: 37 Copynumber: 4.0 Consensus size: 37
3024403 GGTAGTTTTA
* *
3024413 GCTACACTTATTTGATCAAGTGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
3024450 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
3024487 GTTACACTTATCTGATCATGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* * *
3024524 GCTACACTTATCTGATCAAGTGATAAAATGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
3024561 G
1 G
3024562 TAGCTTTAGC
Statistics
Matches: 101, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:3024633 original size:45 final size:46
Alignment explanation
Indices: 3024524--3024647 Score: 182
Period size: 46 Copynumber: 2.8 Consensus size: 46
3024514 GTGATAAGTG
* * *
3024524 GCTACACTTATCTGATCAAGTGATAAAATGATAAGTGGTAGCTTTA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTA
*
3024570 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGC-CTA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTA
*
3024615 GCTACACTTATCTAATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
3024648 AGGTCATATG
Statistics
Matches: 72, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.29
46 39 0.54
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTA
Found at i:3026152 original size:107 final size:104
Alignment explanation
Indices: 3025930--3026183 Score: 331
Period size: 106 Copynumber: 2.4 Consensus size: 104
3025920 GGGTGTTACA
* * *
3025930 ACCCAGTACAAGTTT--AAAAAATTATTTTTTTCGTGTCAGAATTAGATATAAATATACGAAAAA
1 ACCCAGTACAAATTTAAAAAAAATTATTTTTTTCGTGTCAGAATCAAATATAAATATACGAAAAA
*
3025993 AATAAAAAAAATTTCTTGGGTGTCGGCCATTGAGGCCAGC
66 AATAAAAAAAAATTCTTGGGTGTCGGCCA-TGAGGCCAGC
*
3026033 ACCCAATACAAATTTAAAAAAAAATTATTTTTTTCGTGTCAGAATCAAATATAAATATACGAAAA
1 ACCCAGTACAAATTT-AAAAAAAATTATTTTTTTCGTGTCAGAATCAAATATAAATATACGAAAA
*
3026098 AAATAAAAAAAAATT-TTGGGTG-CTGGCC-TGCCAATGGCCGGC
65 AAATAAAAAAAAATTCTTGGGTGTC-GGCCATG---A-GGCCAGC
*
3026140 ACCCAGTACAAA-TTAAAAAAAATTCTTTTTTTTCGTGTCAGAAT
1 ACCCAGTACAAATTTAAAAAAAATT-ATTTTTTTCGTGTCAGAAT
3026184 TAGAATTTTT
Statistics
Matches: 134, Mismatches: 8, Indels: 15
0.85 0.05 0.10
Matches are distributed among these distances:
103 15 0.11
104 1 0.01
105 21 0.16
106 80 0.60
107 17 0.13
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (104 bp):
ACCCAGTACAAATTTAAAAAAAATTATTTTTTTCGTGTCAGAATCAAATATAAATATACGAAAAA
AATAAAAAAAAATTCTTGGGTGTCGGCCATGAGGCCAGC
Found at i:3026457 original size:187 final size:189
Alignment explanation
Indices: 3026234--3026742 Score: 642
Period size: 187 Copynumber: 2.6 Consensus size: 189
3026224 TGACAGGCTA
*
3026234 GCACCCAAAATTTTTTTATTTTTTTTCGTATATTTATATCTGGTTCTGACACAAAAAAAAAGATT
1 GCACCCAAAATTTTTTTA-TTTTTTTCGTATATTTATATCTGATTCTGACACAAAAAAAAAGATT
*
3026299 TTTTTTTAAAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCTAAAATTTTTTTATTTT
65 TTTTTTT-AAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC-AAAATTTTTTTA-TTT
*
3026364 TTTCGTATATTTATATATGATTTTCACACGAA-TTTTTTTTAAATTGTACTGGGT-G-C-T-G
127 TTTCGTATATTTATATATGATTCTCACACGAATTTTTTTTTAAATTGTACTGGGTCGCCATAG
*
3026422 GCACCCAAAATTTTTTTATTTTTTTCGTATATTTATATCTGATTCTGACACGAAAAAAAAGATTT
1 GCACCCAAAATTTTTTTATTTTTTTCGTATATTTATATCTGATTCTGACACAAAAAAAAAGA-TT
* *
3026487 TTTTTTTAAATTTGTACTGGGTACCGGCCATTGACAAGCCAGCACCC-AAATTTTTTTATTTTTT
65 TTTTTTTAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTATTTTTT
* * * * *
3026551 CGTATATTTATATCTGATTCTGATATGAATTTTTTTTTAATTTGTACTGGGTGCCGGCCATTGAC
130 CGTATATTTATATATGATTCTCACACGAATTTTTTTTTAAATTGTACTGGGT--C-GCCA-T---
3026616 AG
188 AG
* *
3026618 GCCAGCACCCAAATTTTTTT-TTAAAATTTTTCGTATATTTATATCTGATTCTGATACAAAAAAA
1 G-CA-C-CCAAAATTTTTTTATT----TTTTTCGTATATTTATATCTGATTCTGACACAAAAAAA
* *
3026682 TA-A-TTTTTTTT-AATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTT
59 AAGATTTTTTTTTAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTT
3026743 TTCGTTTTTT
Statistics
Matches: 282, Mismatches: 18, Indels: 31
0.85 0.05 0.09
Matches are distributed among these distances:
184 30 0.11
185 32 0.11
187 79 0.28
188 27 0.10
189 1 0.00
190 1 0.00
192 1 0.00
196 2 0.01
197 2 0.01
198 40 0.14
199 29 0.10
201 1 0.00
202 37 0.13
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.43
Consensus pattern (189 bp):
GCACCCAAAATTTTTTTATTTTTTTCGTATATTTATATCTGATTCTGACACAAAAAAAAAGATTT
TTTTTTAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTATTTTTTC
GTATATTTATATATGATTCTCACACGAATTTTTTTTTAAATTGTACTGGGTCGCCATAG
Found at i:3026752 original size:104 final size:103
Alignment explanation
Indices: 3026422--3026744 Score: 434
Period size: 104 Copynumber: 3.2 Consensus size: 103
3026412 CTGGGTGCTG
* * *
3026422 GCACCCAAAATTTTTTTAT-TTTTTTCGTATATTTATATCTGATTCTGACACGAAAAAAA-AGAT
1 GCACCCAAATTTTTTTTTTATTTTTTCGTATATTTATATCTGATTCTGATAC-AAAAAAATA-A-
* *
3026485 TTTTTTTTTAAATTTGTACTGGGTACCGGCCATTGACAAGCCA
63 -TTTTTTTT-AATTTGTACTGGGTGCCGGCCATTGACAGGCCA
**
3026528 GCACCCAAA---TTTTTTTATTTTTTCGTATATTTATATCTGATTCTGAT----ATGAAT--TTT
1 GCACCCAAATTTTTTTTTTATTTTTTCGTATATTTATATCTGATTCTGATACAAAAAAATAATTT
3026584 TTTTTAATTTGTACTGGGTGCCGGCCATTGACAGGCCA
66 TTTTTAATTTGTACTGGGTGCCGGCCATTGACAGGCCA
* *
3026622 GCACCCAAATTTTTTTTTAAAATTTTTCGTATATTTATATCTGATTCTGATACAAAAAAATAATT
1 GCACCCAAATTTTTTTTT-TATTTTTTCGTATATTTATATCTGATTCTGATACAAAAAAATAATT
3026687 TTTTTTAATTTGTACTGGGTGCCGGCCATTGACAGGCCA
65 TTTTTTAATTTGTACTGGGTGCCGGCCATTGACAGGCCA
3026726 GCACCCAAATTTTTTTTTT
1 GCACCCAAATTTTTTTTTT
3026745 CGTTTTTTTT
Statistics
Matches: 194, Mismatches: 11, Indels: 27
0.84 0.05 0.12
Matches are distributed among these distances:
94 40 0.21
95 8 0.04
97 6 0.03
98 30 0.15
99 3 0.02
102 4 0.02
103 6 0.03
104 88 0.45
106 9 0.05
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (103 bp):
GCACCCAAATTTTTTTTTTATTTTTTCGTATATTTATATCTGATTCTGATACAAAAAAATAATTT
TTTTTAATTTGTACTGGGTGCCGGCCATTGACAGGCCA
Found at i:3030248 original size:25 final size:25
Alignment explanation
Indices: 3030214--3030265 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
3030204 GTTGTCTTCT
3030214 TTGTAATCACATTTGAAAGGAGACC
1 TTGTAATCACATTTGAAAGGAGACC
3030239 TTGTAATCACATTTGAAAGGAGACC
1 TTGTAATCACATTTGAAAGGAGACC
3030264 TT
1 TT
3030266 TATTTATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (25 bp):
TTGTAATCACATTTGAAAGGAGACC
Found at i:3045454 original size:24 final size:24
Alignment explanation
Indices: 3045426--3045477 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
3045416 TTAGTAAGTC
* *
3045426 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
3045450 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
3045474 AAAT
1 AAAT
3045478 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:3058341 original size:209 final size:209
Alignment explanation
Indices: 3057972--3058398 Score: 818
Period size: 209 Copynumber: 2.0 Consensus size: 209
3057962 GTTGTCTTTT
* *
3057972 TCTTTTAACGTGAAGTGATGGTTTGATTTTTCTTTCTTTTGCGTATATTAATTGATAACAGTTTA
1 TCTTTGAAAGTGAAGTGATGGTTTGATTTTTCTTTCTTTTGCGTATATTAATTGATAACAGTTTA
3058037 ATAAATTTATTAAAATTAATTGTTCACATGGGATAATTACATTTACAAGAAACAAAATATGAGTA
66 ATAAATTTATTAAAATTAATTGTTCACATGGGATAATTACATTTACAAGAAACAAAATATGAGTA
* *
3058102 GAAGTGAGCACTTTTATAACAAGAGCAACAAACACAACGAATAGAGGGGATAACAAAGTTGTTTA
131 GAAGTGAGCACTTTTATAACAACAGCAACAAACACAACGAATAGAGGAGATAACAAAGTTGTTTA
3058167 AGATGAACTCACTA
196 AGATGAACTCACTA
3058181 TCTTTGAAAGTGAAGTGATGGTTTGATTTTTCTTTCTTTTGCGTATATTAATTGATAACAGTTTA
1 TCTTTGAAAGTGAAGTGATGGTTTGATTTTTCTTTCTTTTGCGTATATTAATTGATAACAGTTTA
3058246 ATAAATTTATTAAAATTAATTGTTCACATGGGATAATTACATTTACAAGAAACAAAATATGAGTA
66 ATAAATTTATTAAAATTAATTGTTCACATGGGATAATTACATTTACAAGAAACAAAATATGAGTA
3058311 GAAGTGAGCACTTTTATAACAACAGCAACAAACACAACGAATAGAGGAGATAACAAAGTTGTTTA
131 GAAGTGAGCACTTTTATAACAACAGCAACAAACACAACGAATAGAGGAGATAACAAAGTTGTTTA
3058376 AGATGAACTCACTA
196 AGATGAACTCACTA
3058390 TCTTTGAAA
1 TCTTTGAAA
3058399 CAAATACATC
Statistics
Matches: 214, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
209 214 1.00
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (209 bp):
TCTTTGAAAGTGAAGTGATGGTTTGATTTTTCTTTCTTTTGCGTATATTAATTGATAACAGTTTA
ATAAATTTATTAAAATTAATTGTTCACATGGGATAATTACATTTACAAGAAACAAAATATGAGTA
GAAGTGAGCACTTTTATAACAACAGCAACAAACACAACGAATAGAGGAGATAACAAAGTTGTTTA
AGATGAACTCACTA
Found at i:3059130 original size:22 final size:22
Alignment explanation
Indices: 3059086--3059130 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
3059076 AAAACAAACT
* *
3059086 TTTAGCGGCGCTTTTTAATGCC
1 TTTAGCGACGCTTTTTAACGCC
*
3059108 TTTAGCGACGCTTTTTAGCGCC
1 TTTAGCGACGCTTTTTAACGCC
3059130 T
1 T
3059131 CTAAAAGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.13, C:0.24, G:0.22, T:0.40
Consensus pattern (22 bp):
TTTAGCGACGCTTTTTAACGCC
Found at i:3060410 original size:111 final size:111
Alignment explanation
Indices: 3060194--3060488 Score: 321
Period size: 111 Copynumber: 2.6 Consensus size: 111
3060184 AAAGTAGCAC
* * *
3060194 TTTAACACTTCAATTTATAGCGATAAAACATCTCAATTTGCAGCAACTAAACACTTCAATTTGCA
1 TTTAACACCTCAATTTACAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTCAATTTGCA
** ** *
3060259 GCACTTAAACACTTCAATTTGCAGTACTTAAACATATCAATTAACA
66 GCACTTAAACACTTCAATTAACAACACTTAAACACATCAATTAACA
*
3060305 TTTATACACCTCAA-TTACAGCGATAAAACATCTCAATTTCCAGCAACTAAATACTTCAATTTGC
1 TTTA-ACACCTCAATTTACAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTCAATTTGC
* * *
3060369 AGCACTTAAACA-TATCAATTAACAACATTTATACACCTCAATTACAGCGA
65 AGCACTTAAACACT-TCAATTAACAACACTTAAACACATCAATTA-A-C-A
** * * * *
3060419 TAAAACATCTCAATTTCCAGCAACTAAATAC-T-TCAATTTGCAGC-ACTTAAACACTTCAATTT
1 TTTAACACCTCAATTTACAGCGA-TAAA-ACATCTCAATTTCCAGCAAC-TAAACACTTCAATTT
3060481 GCAGCACT
63 GCAGCACT
3060489 ATCAAATTTC
Statistics
Matches: 156, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
110 1 0.01
111 85 0.54
112 9 0.06
113 11 0.07
114 43 0.28
115 5 0.03
116 2 0.01
ACGTcount: A:0.39, C:0.24, G:0.07, T:0.30
Consensus pattern (111 bp):
TTTAACACCTCAATTTACAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTCAATTTGCA
GCACTTAAACACTTCAATTAACAACACTTAAACACATCAATTAACA
Found at i:3060431 original size:91 final size:88
Alignment explanation
Indices: 3060249--3060479 Score: 376
Period size: 91 Copynumber: 2.6 Consensus size: 88
3060239 ACTAAACACT
* * *
3060249 TCAATTTGCAGC-ACTTAAACACTTCAATTTGCAGTACTTAAACATATCAATTAACATTTATACA
1 TCAATTTCCAGCAAC-TAAATACTTCAATTTGCAGCACTTAAACATATCAATTAACATTTATACA
3060313 CCTCAATTACAGCGATAAAACATC
65 CCTCAATTACAGCGATAAAACATC
3060337 TCAATTTCCAGCAACTAAATACTTCAATTTGCAGCACTTAAACATATCAATTAACAACATTTATA
1 TCAATTTCCAGCAACTAAATACTTCAATTTGCAGCACTTAAACATATCAATT---AACATTTATA
3060402 CACCTCAATTACAGCGATAAAACATC
63 CACCTCAATTACAGCGATAAAACATC
3060428 TCAATTTCCAGCAACTAAATACTTCAATTTGCAGCACTTAAACACT-TCAATT
1 TCAATTTCCAGCAACTAAATACTTCAATTTGCAGCACTTAAACA-TATCAATT
3060480 TGCAGCACTA
Statistics
Matches: 135, Mismatches: 3, Indels: 7
0.93 0.02 0.05
Matches are distributed among these distances:
88 46 0.34
89 2 0.01
91 86 0.64
92 1 0.01
ACGTcount: A:0.40, C:0.24, G:0.06, T:0.30
Consensus pattern (88 bp):
TCAATTTCCAGCAACTAAATACTTCAATTTGCAGCACTTAAACATATCAATTAACATTTATACAC
CTCAATTACAGCGATAAAACATC
Found at i:3060487 original size:23 final size:23
Alignment explanation
Indices: 3060189--3060488 Score: 182
Period size: 23 Copynumber: 13.3 Consensus size: 23
3060179 AATGGAAAGT
* **
3060189 AGCACTTTAACACTTCAATTTAT
1 AGCACTTAAACACTTCAATTTGC
*
3060212 AGCGA-TAAAACA-TCTCAATTTGC
1 AGC-ACTTAAACACT-TCAATTTGC
3060235 AGCAAC-TAAACACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTGC
3060258 AGCACTTAAACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTGC
*
3060281 AGTACTTAAACA-TATCAA-TT--
1 AGCACTTAAACACT-TCAATTTGC
* * * * *
3060301 AACATTTATACACCTCAA-TTAC
1 AGCACTTAAACACTTCAATTTGC
* *
3060323 AGCGA-TAAAACA-TCTCAATTTCC
1 AGC-ACTTAAACACT-TCAATTTGC
*
3060346 AGCAAC-TAAATACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTGC
**
3060369 AGCACTTAAACA-TATCAATTAAC
1 AGCACTTAAACACT-TCAATTTGC
* * * * *
3060392 AACATTTATACACCTCAA-TTAC
1 AGCACTTAAACACTTCAATTTGC
* *
3060414 AGCGA-TAAAACA-TCTCAATTTCC
1 AGC-ACTTAAACACT-TCAATTTGC
*
3060437 AGCAAC-TAAATACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTGC
3060460 AGCACTTAAACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTGC
3060483 AGCACT
1 AGCACT
3060489 ATCAAATTTC
Statistics
Matches: 215, Mismatches: 39, Indels: 46
0.72 0.13 0.15
Matches are distributed among these distances:
20 14 0.07
22 36 0.17
23 161 0.75
24 4 0.02
ACGTcount: A:0.39, C:0.24, G:0.07, T:0.30
Consensus pattern (23 bp):
AGCACTTAAACACTTCAATTTGC
Found at i:3060908 original size:41 final size:39
Alignment explanation
Indices: 3060825--3060908 Score: 114
Period size: 39 Copynumber: 2.1 Consensus size: 39
3060815 GCACAATACA
* **
3060825 ATATAAAAAGCATATATAAATATATGAATGTAGAGGCAT
1 ATATAAAAAGCATATATAAATATATGAATGTACAGAAAT
*
3060864 ATATAAAAAGCATATATAAATATATGTATGTCACAGAAACT
1 ATATAAAAAGCATATATAAATATATGAATGT-ACAGAAA-T
3060905 ATAT
1 ATAT
3060909 TCATTTATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 30 0.77
40 4 0.10
41 5 0.13
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.30
Consensus pattern (39 bp):
ATATAAAAAGCATATATAAATATATGAATGTACAGAAAT
Found at i:3063044 original size:144 final size:146
Alignment explanation
Indices: 3062896--3063237 Score: 494
Period size: 148 Copynumber: 2.3 Consensus size: 146
3062886 TCCTCCAATT
*
3062896 TTTTTTTATTTTGAACAAAATGACGCCGTTTTGCTATTCTAAATTTTTTTTTATTTTTTTTATAA
1 TTTTTTTATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTTATTTTTTTTATAA
* * * *
3062961 ATTGATTTATTTTTTGCGGCG-TTAT-AAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTT
66 ATTGATTTATTCTTTACGGCGTTTATGAAAAACACCGCTATTGCTTACCTTTAGCGACGCTTCTT
*
3063024 A-AAAA-ATGTCGCAAAA
131 ATAAAACA-CT-GCAAAA
* * * **
3063040 TTTTTTCATTTTAAACAAAACGACGCCGTTTTGCTATTTTAAACATTTTTTTATTTTTTTTATAA
1 TTTTTTTATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTTATTTTTTTTATAA
* *
3063105 ATTGATTTATTCTTTACGGCGTTTTTCTGGAAAACACCGCTATTGCTTACCTTTAGCGACGCTTC
66 ATTGATTTATTCTTTACGGCG--TTTATGAAAAACACCGCTATTGCTTACCTTTAGCGACGCTTC
3063170 TTATAAAACACTGCAAAA
129 TTATAAAACACTGCAAAA
*
3063188 TTTTTTTATTTTGAACAAAACGACGCTGTTTTGCTATTCTAAATTTTTTT
1 TTTTTTTATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTT
3063238 ATAATAATTT
Statistics
Matches: 173, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
144 78 0.45
147 3 0.02
148 86 0.50
149 5 0.03
150 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (146 bp):
TTTTTTTATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTTATTTTTTTTATAA
ATTGATTTATTCTTTACGGCGTTTATGAAAAACACCGCTATTGCTTACCTTTAGCGACGCTTCTT
ATAAAACACTGCAAAA
Found at i:3063205 original size:148 final size:143
Alignment explanation
Indices: 3062896--3063239 Score: 478
Period size: 144 Copynumber: 2.4 Consensus size: 143
3062886 TCCTCCAATT
* *
3062896 TTTTTTTATTTTGAACAAAATGACGCCGTTTTGCTATTCTAAATTTTTTTTTATTTTTTTTATAA
1 TTTTTTTATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAA-ATTTTTTTATTTTTTTTATAA
* * * *
3062961 ATTGATTTATTTTTTGCGGCGTTATAAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTAA
65 ATTGATTTATTCTTTACGGCGTTATAAAAACACCGCTATTGCTTACCTTTAGCGACGCTTCTTAA
*
3063026 AAAATGTCGCAAAA
130 AAAATCTCGCAAAA
* * *
3063040 TTTTTTCATTTTAAACAAAACGACGCCGTTTTGCTATTTTAAACATTTTTTTATTTTTTTTATAA
1 TTTTTTTATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAA-ATTTTTTTATTTTTTTTATAA
* *
3063105 ATTGATTTATTCTTTACGGCGTTTTTCTGGAAAACACCGCTATTGCTTACCTTTAGCGACGCTTC
65 ATTGATTTATTCTTTACGGCG---TTAT-AAAAACACCGCTATTGCTTACCTTTAGCGACGCTTC
3063170 TTATAAAACA-CT-GCAAAA
126 TTA-AAAA-ATCTCGCAAAA
*
3063188 TTTTTTTATTTTGAACAAAACGACGCTGTTTTGCTATTCT-AAATTTTTTTAT
1 TTTTTTTATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTAT
3063240 AATAATTTAT
Statistics
Matches: 177, Mismatches: 17, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
144 78 0.44
146 10 0.06
147 5 0.03
148 78 0.44
149 5 0.03
150 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (143 bp):
TTTTTTTATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTTATAAA
TTGATTTATTCTTTACGGCGTTATAAAAACACCGCTATTGCTTACCTTTAGCGACGCTTCTTAAA
AAATCTCGCAAAA
Found at i:3063257 original size:96 final size:97
Alignment explanation
Indices: 3063155--3063336 Score: 285
Period size: 96 Copynumber: 1.9 Consensus size: 97
3063145 TATTGCTTAC
* * * *
3063155 CTTTAGCGACGCTTCTTATAAAACACTGCAAAATTTTTTTATTTTGAACAAAACGACGCTGTTTT
1 CTTTAGCGACGCTTCTTAAAAAACACCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTT
*
3063220 GCTATTCT-AAATTTTTTTATAATAATTTATT
66 GCTATTCTAAAATTCTTTTATAATAATTTATT
* * *
3063251 CTTTAGCGGCGCTTGTTAAAAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTT
1 CTTTAGCGACGCTTCTTAAAAAACACCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTT
3063316 GCTATTCTAAAATTCTTTTAT
66 GCTATTCTAAAATTCTTTTAT
3063337 TTTTTTTATA
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
96 66 0.86
97 11 0.14
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (97 bp):
CTTTAGCGACGCTTCTTAAAAAACACCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTT
GCTATTCTAAAATTCTTTTATAATAATTTATT
Found at i:3063424 original size:147 final size:147
Alignment explanation
Indices: 3063251--3064112 Score: 1322
Period size: 147 Copynumber: 6.0 Consensus size: 147
3063241 ATAATTTATT
* *
3063251 CTTTAGCGGCGCTTGTTAAAAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTT
1 CTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTT
* *
3063316 GCTATTCTAAAATTCTTTTATTTTTTTTATAAATTGATTTATTCTTTGCGGCGTTTTTCTGGAAA
66 GCTATTCTAAAATTTTTTTATTTTTTTTATAAATTGATTTATTCTTTGCGGCGTTTTTCTAGAAA
3063381 ACGCCGCTATTGCTTAC
131 ACGCCGCTATTGCTTAC
* * **
3063398 CTTTAGCGGCGCTTCTTATAAAACGCCTCAAAATTGTTTCATTTTGAACAAAGGGACGCCGTTTT
1 CTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTT
*
3063463 GCTATTCTAAAAATTTTTTTA-TTTTTTTATAAATTAATTTATTCTTT-----G-----C--GAA
66 GCTATTCT-AAAATTTTTTTATTTTTTTTATAAATTGATTTATTCTTTGCGGCGTTTTTCTAGAA
* *
3063515 AACACTGCTATTGCTTAC
130 AACGCCGCTATTGCTTAC
*
3063533 CTTTAGCGGCGCTTCTTATAAAATGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTT
1 CTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTT
* *
3063598 GCTATTCTAAAATTTTTTTATTTTTTTTATAAACTGATTTATTCTTTGCGGCGTTTTTATAGAAA
66 GCTATTCTAAAATTTTTTTATTTTTTTTATAAATTGATTTATTCTTTGCGGCGTTTTTCTAGAAA
*
3063663 ACGCCGCTATTGCTTAT
131 ACGCCGCTATTGCTTAC
* * * *
3063680 CTTTAGCGGCGCTTCTTAAAAAACGCCGTAAATTTTTTTCATTTTGAGCAAAACGACGCCGTTTT
1 CTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTT
*
3063745 GCTATTCTAAATTTTTTTTA-TTTTTTTATAAATTGATTTATTCTTTGCGGCGTTTTTCTAGAAA
66 GCTATTCTAAAATTTTTTTATTTTTTTTATAAATTGATTTATTCTTTGCGGCGTTTTTCTAGAAA
3063809 ACGCCGCTATTGCTTAC
131 ACGCCGCTATTGCTTAC
* * * * *
3063826 TTTTAGCGGCGCTTCTTATAAAACACCGTAAATTTTTTTCATTTTGAACAAAACCACGCCGTTTT
1 CTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTT
* * **
3063891 GCTATTCTAAAATTTTTTTATATTTTTTATAAATTGATTTATTCTTTGCAGCGTTTTTCGGGAAA
66 GCTATTCTAAAATTTTTTTATTTTTTTTATAAATTGATTTATTCTTTGCGGCGTTTTTCTAGAAA
3063956 ACGCCGCTATTGCTTAC
131 ACGCCGCTATTGCTTAC
*
3063973 CTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACCCCGTTTT
1 CTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTT
* *
3064038 GCTATTCTAAAA-TTTTTTATTTTTTTAATAAATTGATTTATTCTTTGCGGCGTTTTTATAGAAA
66 GCTATTCTAAAATTTTTTTATTTTTTTTATAAATTGATTTATTCTTTGCGGCGTTTTTCTAGAAA
3064102 ACGCCGCTATT
131 ACGCCGCTATT
3064113 TCATTTTGAA
Statistics
Matches: 648, Mismatches: 52, Indels: 31
0.89 0.07 0.04
Matches are distributed among these distances:
134 12 0.02
135 111 0.17
137 1 0.00
140 1 0.00
142 1 0.00
146 194 0.30
147 317 0.49
148 11 0.02
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.43
Consensus pattern (147 bp):
CTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTT
GCTATTCTAAAATTTTTTTATTTTTTTTATAAATTGATTTATTCTTTGCGGCGTTTTTCTAGAAA
ACGCCGCTATTGCTTAC
Found at i:3063444 original size:243 final size:245
Alignment explanation
Indices: 3063007--3063765 Score: 833
Period size: 282 Copynumber: 3.0 Consensus size: 245
3062997 TATTGCTTAC
* *
3063007 CTTTAGCGGCGCTTCTTAAAAAATGTCGCAAAATTTTTTCATTTTAAACAAAACGACGCCGTTTT
1 CTTTAGCGGCGCTTCTTAAAAAACGCCGCAAAATTTTTTCATTTTAAACAAAACGACGCCGTTTT
* *
3063072 GCTATTTTAAACATTTTTTTATTTTTTTTATAAATTGATTTATTCTTTACGGCGTTTTTCTGGAA
66 GCTATTCTAAACATTCTTTTATTTTTTTTATAAATTGATTTATTCTTTACGGCGTTTTTCTGGAA
* *
3063137 AACACCGCTATTGCTTACCTTTAGCGACGCTTCTTATAAAACACTGCAAAATTTTTTTATTTTGA
131 AACACCGCTATTGCTTACCTTTAGCGACGCTTCTTATAAAACACTGCAAAATTGTTTCATTTTGA
*
3063202 ACAAAACGACGCTGTTTTGCTATTCT-AAATTTTTTTATAATAATTTATT
196 ACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATAATAATTTATT
* *
3063251 CTTTAGCGGCGCTTGTTAAAAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTT
1 CTTTAGCGGCGCTTCTTAAAAAACGCCGCAAAATTTTTTCATTTTAAACAAAACGACGCCGTTTT
*
3063316 GCTATTCTAAA-ATTCTTTTATTTTTTTTATAAATTGATTTATTCTTTGCGGCGTTTTTCTGGAA
66 GCTATTCTAAACATTCTTTTATTTTTTTTATAAATTGATTTATTCTTTACGGCGTTTTTCTGGAA
* * *
3063380 AACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCT-CAAAATTGTTTCATTTTG
131 AACACCGCTATTGCTTACCTTTAGCGACGCTTCTTATAAAAC-ACTGCAAAATTGTTTCATTTTG
**
3063444 AACAAAGGGACGCCGTTTTGCTATTCTAAAAATTTTTTTATTTTTTTATAAATTAATTTATTCTT
195 AACAAAACGACGCCGTTTTGCTATTCT--AAA-------ATTTTTTTAT-AA-TAATTTA-----
3063509 TGCGAAAACACT
244 T----------T
* * *
3063521 GCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAATGCCGCAAAATTTTTTCATTTTGAACAAAA
1 -C---T--TT------AGCGGCGCTTCTTAAAAAACGCCGCAAAATTTTTTCATTTTAAACAAAA
* * *
3063586 CGACGCCGTTTTGCTATTCTAAA-ATTTTTTTATTTTTTTTATAAACTGATTTATTCTTTGCGGC
54 CGACGCCGTTTTGCTATTCTAAACATTCTTTTATTTTTTTTATAAATTGATTTATTCTTTACGGC
* * * * * * * * * *
3063650 GTTTTTATAGAAAACGCCGCTATTGCTTATCTTTAGCGGCGCTTCTTAAAAAACGCCGTAAATTT
119 GTTTTTCTGGAAAACACCGCTATTGCTTACCTTTAGCGACGCTTCTTATAAAACACTGCAAAATT
* * *
3063715 TTTTCATTTTGAGCAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTAT
184 GTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTAT
3063766 TTTTTTATAA
Statistics
Matches: 441, Mismatches: 33, Indels: 53
0.84 0.06 0.10
Matches are distributed among these distances:
243 131 0.30
244 73 0.17
246 2 0.00
253 10 0.02
254 2 0.00
255 7 0.02
260 1 0.00
270 1 0.00
271 1 0.00
273 9 0.02
274 1 0.00
276 2 0.00
280 3 0.01
281 1 0.00
282 197 0.45
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (245 bp):
CTTTAGCGGCGCTTCTTAAAAAACGCCGCAAAATTTTTTCATTTTAAACAAAACGACGCCGTTTT
GCTATTCTAAACATTCTTTTATTTTTTTTATAAATTGATTTATTCTTTACGGCGTTTTTCTGGAA
AACACCGCTATTGCTTACCTTTAGCGACGCTTCTTATAAAACACTGCAAAATTGTTTCATTTTGA
ACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATAATAATTTATT
Found at i:3063931 original size:293 final size:292
Alignment explanation
Indices: 3063251--3064112 Score: 1327
Period size: 293 Copynumber: 3.0 Consensus size: 292
3063241 ATAATTTATT
* *
3063251 CTTTAGCGGCGCTTGTTAAAAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTT
1 CTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTT
*
3063316 GCTATTCTAAAATTCTTTTATTTTTTTTATAAATTGATTTATTCTTTGCGGCGTTTTTCTGGAAA
66 GCTATTCTAAAATTTTTTTATTTTTTTTATAAATTGATTTATTCTTTGCGGCGTTTTTCTGGAAA
*
3063381 ACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCC-TCAAAATTGTTTCATTTTGA
131 ACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCGT-AAAATTTTTTCATTTTGA
** *
3063445 ACAAAGGGACGCCGTTTTGCTATTCTAAAAATTTTTTTATTTTTTTATAAATTAATTTATTCTTT
195 ACAAAACGACGCCGTTTTGCTATTCT--AAATTTTTTTATTTTTTTATAAATTGATTTATTCTTT
* *
3063510 -----G-----C--GAAAACACTGCTATTGCTTAC
258 GCGGCGTTTTTCTAGAAAACGCCGCTATTGCTTAC
*
3063533 CTTTAGCGGCGCTTCTTATAAAATGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTT
1 CTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTT
* * *
3063598 GCTATTCTAAAATTTTTTTATTTTTTTTATAAACTGATTTATTCTTTGCGGCGTTTTTATAGAAA
66 GCTATTCTAAAATTTTTTTATTTTTTTTATAAATTGATTTATTCTTTGCGGCGTTTTTCTGGAAA
* * * *
3063663 ACGCCGCTATTGCTTATCTTTAGCGGCGCTTCTTAAAAAACGCCGTAAATTTTTTTCATTTTGAG
131 ACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCGTAAAATTTTTTCATTTTGAA
3063728 CAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTTTTATAAATTGATTTATTCTTTGC
196 CAAAACGACGCCGTTTTGCTATTCTAAA-TTTTTTTATTTTTTTATAAATTGATTTATTCTTTGC
3063793 GGCGTTTTTCTAGAAAACGCCGCTATTGCTTAC
260 GGCGTTTTTCTAGAAAACGCCGCTATTGCTTAC
* * * * *
3063826 TTTTAGCGGCGCTTCTTATAAAACACCGTAAATTTTTTTCATTTTGAACAAAACCACGCCGTTTT
1 CTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTT
* * *
3063891 GCTATTCTAAAATTTTTTTATATTTTTTATAAATTGATTTATTCTTTGCAGCGTTTTTCGGGAAA
66 GCTATTCTAAAATTTTTTTATTTTTTTTATAAATTGATTTATTCTTTGCGGCGTTTTTCTGGAAA
*
3063956 ACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTTGAA
131 ACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCGTAAAATTTTTTCATTTTGAA
* *
3064021 CAAAACGACCCCGTTTTGCTATTCTAAAATTTTTTATTTTTTTAATAAATTGATTTATTCTTTGC
196 CAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTATTTTTTT-ATAAATTGATTTATTCTTTGC
*
3064086 GGCGTTTTTATAGAAAACGCCGCTATT
260 GGCGTTTTTCTAGAAAACGCCGCTATT
3064113 TCATTTTGAA
Statistics
Matches: 528, Mismatches: 37, Indels: 19
0.90 0.06 0.03
Matches are distributed among these distances:
280 3 0.01
281 33 0.06
282 204 0.39
283 1 0.00
286 1 0.00
291 1 0.00
292 14 0.03
293 271 0.51
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.43
Consensus pattern (292 bp):
CTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTT
GCTATTCTAAAATTTTTTTATTTTTTTTATAAATTGATTTATTCTTTGCGGCGTTTTTCTGGAAA
ACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCGTAAAATTTTTTCATTTTGAA
CAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTATTTTTTTATAAATTGATTTATTCTTTGCG
GCGTTTTTCTAGAAAACGCCGCTATTGCTTAC
Found at i:3064558 original size:22 final size:22
Alignment explanation
Indices: 3064513--3064558 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
3064503 CTTAACTCTT
*
3064513 AACCCCTAACATCTAATCCCTA
1 AACCCCTAACATCTAAACCCTA
*
3064535 AACCCCTAA-ACTCTAAACCTTA
1 AACCCCTAACA-TCTAAACCCTA
3064557 AA
1 AA
3064559 TCCCAATCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.41, C:0.37, G:0.00, T:0.22
Consensus pattern (22 bp):
AACCCCTAACATCTAAACCCTA
Found at i:3064580 original size:14 final size:14
Alignment explanation
Indices: 3064563--3064617 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
3064553 CTTAAATCCC
*
3064563 AATCCTTAAACCAT
1 AATCCCTAAACCAT
* **
3064577 AATCCATAATTCAT
1 AATCCCTAAACCAT
3064591 AATCCCTAAATCCAT
1 AATCCCTAAA-CCAT
*
3064606 ACTCCCTAAACC
1 AATCCCTAAACC
3064618 TTAAATATGA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
14 21 0.64
15 12 0.36
ACGTcount: A:0.40, C:0.33, G:0.00, T:0.27
Consensus pattern (14 bp):
AATCCCTAAACCAT
Found at i:3064855 original size:15 final size:15
Alignment explanation
Indices: 3064831--3064861 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3064821 AACCCATAAT
3064831 CCATAATCCCTAAAC
1 CCATAATCCCTAAAC
*
3064846 CCATACTCCCTAAAC
1 CCATAATCCCTAAAC
3064861 C
1 C
3064862 TTAAAATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.45, G:0.00, T:0.19
Consensus pattern (15 bp):
CCATAATCCCTAAAC
Found at i:3064866 original size:22 final size:22
Alignment explanation
Indices: 3064821--3064866 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
3064811 CTTAAATACT
*
3064821 AACCCATAATCCATAATCCCTA
1 AACCCATAATCCATAAACCCTA
* * *
3064843 AACCCATACTCCCTAAACCTTA
1 AACCCATAATCCATAAACCCTA
3064865 AA
1 AA
3064867 ATATGAACTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.37, G:0.00, T:0.22
Consensus pattern (22 bp):
AACCCATAATCCATAAACCCTA
Found at i:3065089 original size:260 final size:251
Alignment explanation
Indices: 3064566--3065221 Score: 1056
Period size: 245 Copynumber: 2.6 Consensus size: 251
3064556 AAATCCCAAT
* * *
3064566 CCTTAAACCATAATCCATAATTCATAATCCCTAAATCCATACTCCCTAAACCTT-AAATATGAAC
1 CCTTAAACC-TAACCCATAATCCATAATCCCTAAACCCATACTCCCTAAACCTTAAAATATGAAC
*
3064630 TCTTAAACCGGCTTTAAATCTTAAATTAATCATATACCCTAAACTAAAAACCCTAAACAAATTTA
65 TCCTAAACCGGCTTTAAATCTTAAATTAATCATATACCCTAAACTAAAAACCCTAAACAAATTTA
*
3064695 TTATTATCTCTTTTACAATTATATAATAACATATTTAAAATATAAATTAAAAAATAATTAATCTA
130 TTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATAATTAATCTA
3064760 AACCCAAAACCCTAACTCGACCCATGAATCCCTAACTTTTAATCCCTAAACCTTAAA
195 AACCCAAAACCCTAACTCGACCCATGAATCCCTAACTTTTAATCCCTAAACCTTAAA
3064817 ---T--A-CTAACCCATAATCCATAATCCCTAAACCCATACTCCCTAAACCTTAAAATATGAACT
1 CCTTAAACCTAACCCATAATCCATAATCCCTAAACCCATACTCCCTAAACCTTAAAATATGAACT
*
3064876 CCTAAACCGGTTTTAAATCTTAAATTAATCATATACCCTAAACTAAAAACCCTAAACAAATTTAT
66 CCTAAACCGGCTTTAAATCTTAAATTAATCATATACCCTAAACTAAAAACCCTAAACAAATTTAT
*
3064941 TATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATAATTAATTTAA
131 TATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATAATTAATCTAA
*
3065006 ACCCAAAACCCTAACTCGACCCCTGAATCCCTAACTTTTAATCCCTAAACCCCTAACCCCTAAA
196 ACCCAAAACCCTAACTCGACCCATGAATCCCTAACTTTTAATCCCTAAA--CCT------TAAA
3065070 CCTTAAATCCTAACCCATAATCCATAATCCCTAAACCCATACTCCCTAAACCTTAAAATATGAAC
1 CCTTAAA-CCTAACCCATAATCCATAATCCCTAAACCCATACTCCCTAAACCTTAAAATATGAAC
* * *
3065135 TCCTAAACCGGCCTTAAATCTTAAATAAATCATATACCCTAAACAAAAAACCCTAAACAAATTTA
65 TCCTAAACCGGCTTTAAATCTTAAATTAATCATATACCCTAAACTAAAAACCCTAAACAAATTTA
* *
3065200 TTATTATATCATTTACAATTAT
130 TTATTATCTCTTTTACAATTAT
3065222 TTTAAATAAT
Statistics
Matches: 375, Mismatches: 14, Indels: 23
0.91 0.03 0.06
Matches are distributed among these distances:
244 41 0.11
245 186 0.50
246 1 0.00
247 3 0.01
248 1 0.00
253 4 0.01
256 1 0.00
258 1 0.00
260 137 0.37
ACGTcount: A:0.43, C:0.25, G:0.02, T:0.30
Consensus pattern (251 bp):
CCTTAAACCTAACCCATAATCCATAATCCCTAAACCCATACTCCCTAAACCTTAAAATATGAACT
CCTAAACCGGCTTTAAATCTTAAATTAATCATATACCCTAAACTAAAAACCCTAAACAAATTTAT
TATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATAATTAATCTAA
ACCCAAAACCCTAACTCGACCCATGAATCCCTAACTTTTAATCCCTAAACCTTAAA
Found at i:3065102 original size:21 final size:22
Alignment explanation
Indices: 3065051--3065110 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
3065041 TTTTAATCCC
* * *
3065051 TAAACCCCTAACCCCTAAACCT
1 TAAATCCCTAACCCATAAACCA
*
3065073 TAAAT-CCTAACCCATAATCCA
1 TAAATCCCTAACCCATAAACCA
3065094 T-AATCCCTAAACCCATA
1 TAAATCCCT-AACCCATA
3065111 CTCCCTAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 3 0.09
21 17 0.53
22 12 0.38
ACGTcount: A:0.40, C:0.38, G:0.00, T:0.22
Consensus pattern (22 bp):
TAAATCCCTAACCCATAAACCA
Found at i:3065115 original size:15 final size:15
Alignment explanation
Indices: 3065091--3065121 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3065081 AACCCATAAT
3065091 CCATAATCCCTAAAC
1 CCATAATCCCTAAAC
*
3065106 CCATACTCCCTAAAC
1 CCATAATCCCTAAAC
3065121 C
1 C
3065122 TTAAAATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.45, G:0.00, T:0.19
Consensus pattern (15 bp):
CCATAATCCCTAAAC
Found at i:3065126 original size:22 final size:22
Alignment explanation
Indices: 3065044--3065126 Score: 60
Period size: 22 Copynumber: 3.8 Consensus size: 22
3065034 CCCTAACTTT
* ** *
3065044 TAATCCCTAAACCCCTAACCCC
1 TAATCCATAAACCCTAAACCCA
* * *
3065066 TAAACCTTAAATCCT-AACCCA
1 TAATCCATAAACCCTAAACCCA
*
3065087 TAATCCATAATCCCTAAACCCA
1 TAATCCATAAACCCTAAACCCA
* * *
3065109 TACTCCCTAAACCTTAAA
1 TAATCCATAAACCCTAAA
3065127 ATATGAACTC
Statistics
Matches: 47, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
21 16 0.34
22 31 0.66
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.23
Consensus pattern (22 bp):
TAATCCATAAACCCTAAACCCA
Found at i:3065596 original size:113 final size:113
Alignment explanation
Indices: 3065366--3065609 Score: 362
Period size: 113 Copynumber: 2.2 Consensus size: 113
3065356 AGATAAAATA
* * * * *
3065366 TTTTTAGCAGCGCTTTTCCAAAAATGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAA
1 TTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTTAAAAA
*
3065431 CGCCGCAAAATCCCTAAAGCTCAGAAAACGGCGTCGTGGGGCTTAGGT
66 CGCCGCAAAATCCCAAAAGCTCAGAAAACGGCGTCGTGGGGCTTAGGT
**
3065479 TTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTTTTAAA
1 TTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTTAAAAA
* * * *
3065544 CGCCTCTAAATCCCCAAAAGCTCATAAAACGGCGTCGTTGGGCTTAGGT
66 CGCCGCAAAAT-CCCAAAAGCTCAGAAAACGGCGTCGTGGGGCTTAGGT
*
3065593 TTTTTTACGGCGCTTTC
1 TTTTTTGCGGCGCTTTC
3065610 TTAGAAACCC
Statistics
Matches: 117, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
113 67 0.57
114 50 0.43
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (113 bp):
TTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTTAAAAA
CGCCGCAAAATCCCAAAAGCTCAGAAAACGGCGTCGTGGGGCTTAGGT
Found at i:3065623 original size:114 final size:113
Alignment explanation
Indices: 3065366--3065626 Score: 351
Period size: 114 Copynumber: 2.3 Consensus size: 113
3065356 AGATAAAATA
* * ** *
3065366 TTTTTAGCAGCGCTTTTCCAAAAATGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAA
1 TTTTTA-CGGCGCTTTCCCAAAAACCCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTTAAAAA
*
3065431 CGCCGCAAAATCCCTAAAGCTCAGAAAACGGCGTCGTGGGGCTTAGGTT
65 CGCCGCAAAATCCCAAAAGCTCAGAAAACGGCGTCGTGGGGCTTAGGTT
* * **
3065480 TTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTTTTAAAC
1 TTTTTACGGCGCTTTCCCAAAAACCCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTTAAAAAC
* * * *
3065545 GCCTCTAAATCCCCAAAAGCTCATAAAACGGCGTCGTTGGGCTTAGGTT
66 GCCGCAAAAT-CCCAAAAGCTCAGAAAACGGCGTCGTGGGGCTTAGGTT
** *
3065594 TTTTTACGGCGCTTTCTTAGAAACCCCGCTAAA
1 TTTTTACGGCGCTTTCCCAAAAACCCCGCTAAA
3065627 TCCCCGAAAG
Statistics
Matches: 129, Mismatches: 17, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
113 61 0.47
114 68 0.53
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (113 bp):
TTTTTACGGCGCTTTCCCAAAAACCCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTTAAAAAC
GCCGCAAAATCCCAAAAGCTCAGAAAACGGCGTCGTGGGGCTTAGGTT
Found at i:3065647 original size:73 final size:72
Alignment explanation
Indices: 3065549--3065697 Score: 192
Period size: 73 Copynumber: 2.1 Consensus size: 72
3065539 TTAAACGCCT
* * *
3065549 CTAAATCCCCAAAAGCTCATAAAACGGCGTCGTTGGGCTTAGGTTTTTT-TACGGCGCTTTCTTA
1 CTAAATCCCCAAAAGCTCAGAAAACGACGTCGTTGGGCTTAGGTTTTTTGT--GGCGCTTTCTCA
*
3065613 GAAACCCCG
64 AAAACCCCG
* * * *
3065622 CTAAATCCCCGAAAGCTCGGGAAACGACGTCTTTGGGCTTAGGTTTTTTGTGGCGCTTTCTCAAA
1 CTAAATCCCCAAAAGCTCAGAAAACGACGTCGTTGGGCTTAGGTTTTTTGTGGCGCTTTCTCAAA
*
3065687 AACGCCG
66 AACCCCG
3065694 CTAA
1 CTAA
3065698 TGCTTATTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
72 22 0.33
73 43 0.65
74 1 0.02
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (72 bp):
CTAAATCCCCAAAAGCTCAGAAAACGACGTCGTTGGGCTTAGGTTTTTTGTGGCGCTTTCTCAAA
AACCCCG
Found at i:3069405 original size:22 final size:21
Alignment explanation
Indices: 3069363--3069411 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
3069353 AATCTTTTAC
3069363 AAAATTAAAAAAAAAACTATA
1 AAAATTAAAAAAAAAACTATA
* * *
3069384 GAAATATAAAAAAAATATTATA
1 AAAAT-TAAAAAAAAAACTATA
3069406 AAAATT
1 AAAATT
3069412 TTATGAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (21 bp):
AAAATTAAAAAAAAAACTATA
Found at i:3080177 original size:54 final size:51
Alignment explanation
Indices: 3080095--3080201 Score: 169
Period size: 54 Copynumber: 2.0 Consensus size: 51
3080085 TTCCGAAAGG
* *
3080095 TTCTCGTCCATTTGTCCTTCACGACATTCACCCTTCTGTTGAGAATGTGATTCT
1 TTCTCATCCACTTGTCCTTCACGACATTCACCC-T-T-TTGAGAATGTGATTCT
3080149 TTCTCATCCACTTGTCCTTCACGACATTCACCCTTTTGAGAATGTGATTCT
1 TTCTCATCCACTTGTCCTTCACGACATTCACCCTTTTGAGAATGTGATTCT
3080200 TT
1 TT
3080202 AAGCTATCAA
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
51 18 0.35
52 1 0.02
53 1 0.02
54 31 0.61
ACGTcount: A:0.18, C:0.28, G:0.13, T:0.41
Consensus pattern (51 bp):
TTCTCATCCACTTGTCCTTCACGACATTCACCCTTTTGAGAATGTGATTCT
Found at i:3082402 original size:20 final size:20
Alignment explanation
Indices: 3082374--3082411 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
3082364 AATTTAATTT
3082374 TTTCCTTTTATTTT-TTTAAC
1 TTTCCTTTT-TTTTCTTTAAC
*
3082394 TTTCTTTTTTTTTCTTTA
1 TTTCCTTTTTTTTCTTTA
3082412 TTTTCCGTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTCCTTTTTTTTCTTTAAC
Found at i:3084481 original size:20 final size:20
Alignment explanation
Indices: 3084456--3084521 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 20
3084446 TTTTTTACTA
*
3084456 TTATAATCAAATATCTGTTT
1 TTATAATCAAATATCTATTT
*
3084476 TTATAA-CAAA-ATTTAATTACT
1 TTATAATCAAATATCT-ATT--T
3084497 ATTATAATCAAATATCTATTT
1 -TTATAATCAAATATCTATTT
3084518 TTAT
1 TTAT
3084522 GACAAAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
18 3 0.08
19 6 0.16
20 10 0.27
21 2 0.05
22 6 0.16
23 7 0.19
24 3 0.08
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (20 bp):
TTATAATCAAATATCTATTT
Found at i:3084496 original size:42 final size:42
Alignment explanation
Indices: 3084450--3084534 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
3084440 TTCAATTTTT
*
3084450 TTACTATTATAATCAAATATCTGTTTTTATAACAAAATTTAA
1 TTACTATTATAATCAAATATCTATTTTTATAACAAAATTTAA
*
3084492 TTACTATTATAATCAAATATCTATTTTTATGACAAAATTTAA
1 TTACTATTATAATCAAATATCTATTTTTATAACAAAATTTAA
3084534 T
1 T
3084535 GCCCAGAACT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.46
Consensus pattern (42 bp):
TTACTATTATAATCAAATATCTATTTTTATAACAAAATTTAA
Found at i:3093793 original size:25 final size:26
Alignment explanation
Indices: 3093739--3093793 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
3093729 TTAACTATTT
* * * *
3093739 AAAAAAATTAATTATCAAATTTAGTT
1 AAAAAAAGTAATGATCAAATTGAGTA
3093765 AAAAAAAGTAATGATCAAATTGA-TA
1 AAAAAAAGTAATGATCAAATTGAGTA
3093790 AAAA
1 AAAA
3093794 TATAAATATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 5 0.20
26 20 0.80
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (26 bp):
AAAAAAAGTAATGATCAAATTGAGTA
Found at i:3095564 original size:9 final size:9
Alignment explanation
Indices: 3095552--3095625 Score: 52
Period size: 9 Copynumber: 8.6 Consensus size: 9
3095542 ATTTTAGATT
3095552 TTTTTAATA
1 TTTTTAATA
*
3095561 TTTTTTATA
1 TTTTTAATA
3095570 TTTTTACAT-
1 TTTTTA-ATA
3095579 TTTTT--TA
1 TTTTTAATA
3095586 -TTTT-ATGA
1 TTTTTAAT-A
* *
3095594 GTTATTATTA
1 -TTTTTAATA
3095604 TTTTTAAT-
1 TTTTTAATA
3095612 TTTTTAATA
1 TTTTTAATA
3095621 TTTTT
1 TTTTT
3095626 GTTTTTATTT
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 5 0.10
7 1 0.02
8 9 0.18
9 29 0.57
10 6 0.12
11 1 0.02
ACGTcount: A:0.24, C:0.01, G:0.03, T:0.72
Consensus pattern (9 bp):
TTTTTAATA
Found at i:3096832 original size:31 final size:28
Alignment explanation
Indices: 3096789--3096884 Score: 95
Period size: 29 Copynumber: 3.2 Consensus size: 28
3096779 TCTTTAAATG
*
3096789 TGTACAATTGAATCAAAATCAAAGCTTCA
1 TGTATAATTGAATCAAAATCAAAG-TTCA
*
3096818 TGTATACATATGAATCACAAATCAAATTTCA
1 TGTATA-AT-TGAATCA-AAATCAAAGTTCA
* *
3096849 TGTGTATAATTG-AGCCAAATCAAAGTTCA
1 --TGTATAATTGAATCAAAATCAAAGTTCA
3096878 TGTATAA
1 TGTATAA
3096885 ATTTGATATT
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
27 7 0.12
29 17 0.30
30 4 0.07
31 13 0.23
32 10 0.18
33 6 0.11
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.31
Consensus pattern (28 bp):
TGTATAATTGAATCAAAATCAAAGTTCA
Found at i:3100570 original size:31 final size:31
Alignment explanation
Indices: 3100500--3100570 Score: 72
Period size: 31 Copynumber: 2.3 Consensus size: 31
3100490 TGATTTGGTG
* * *
3100500 TAATTATACACATAAAACTTGAATTTTGGTC
1 TAATTGTATACATAAAACTTGAATTTTGATC
* * *
3100531 T-ATATGTATACATGAAACTTTAATTTTGATT
1 TAAT-TGTATACATAAAACTTGAATTTTGATC
3100562 TAATTGTAT
1 TAATTGTAT
3100571 GCATTTAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
30 2 0.06
31 28 0.88
32 2 0.06
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (31 bp):
TAATTGTATACATAAAACTTGAATTTTGATC
Found at i:3102029 original size:28 final size:31
Alignment explanation
Indices: 3101998--3102068 Score: 76
Period size: 28 Copynumber: 2.4 Consensus size: 31
3101988 TGTGCCAAGA
*
3101998 AAAAATAAAAAAAAAAC-T-AAAAAAT-TTC
1 AAAAATAAAAAAAAAACTTAAAAAAATCATC
** *
3102026 AAAAATATCAGAAAAACTTAAAAAAATCATC
1 AAAAATAAAAAAAAAACTTAAAAAAATCATC
*
3102057 AAAAATGAAAAA
1 AAAAATAAAAAA
3102069 TTGGAAAAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
28 14 0.44
29 1 0.03
30 7 0.22
31 10 0.31
ACGTcount: A:0.72, C:0.08, G:0.03, T:0.17
Consensus pattern (31 bp):
AAAAATAAAAAAAAAACTTAAAAAAATCATC
Found at i:3102101 original size:20 final size:21
Alignment explanation
Indices: 3102076--3102114 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
3102066 AAATTGGAAA
*
3102076 AAACTTTAAAA-TTTATAAAG
1 AAACTTAAAAAGTTTATAAAG
3102096 AAACTTAAAAAGTTTATAA
1 AAACTTAAAAAGTTTATAA
3102115 TATACTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (21 bp):
AAACTTAAAAAGTTTATAAAG
Found at i:3106627 original size:11 final size:11
Alignment explanation
Indices: 3106611--3106636 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
3106601 ATTTTTTTAA
3106611 TTTTAAAATAC
1 TTTTAAAATAC
3106622 TTTTAAAATAC
1 TTTTAAAATAC
3106633 TTTT
1 TTTT
3106637 TTTAAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:3106640 original size:39 final size:38
Alignment explanation
Indices: 3106596--3106724 Score: 170
Period size: 39 Copynumber: 3.3 Consensus size: 38
3106586 ATAATAAATA
3106596 TTTTTATTTTTTTAATTTTAAAATACTTTTAAAATACTT
1 TTTTTATTTTTTTAATTTTAAAATA-TTTTAAAATACTT
* * *
3106635 TTTTTAAATTTTTTAAATTTT-AATTTTTTTAAAATACTT
1 TTTTT--ATTTTTTTAATTTTAAAATATTTTAAAATACTT
*
3106674 TTTTAATTTTTTTTAATTTTAAAATATTTTAAAATACTT
1 TTTTTA-TTTTTTTAATTTTAAAATATTTTAAAATACTT
*
3106713 TTTTTAATTTTT
1 TTTTTATTTTTT
3106725 AAAATAAATT
Statistics
Matches: 77, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
37 1 0.01
38 17 0.22
39 43 0.56
40 3 0.04
41 13 0.17
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (38 bp):
TTTTTATTTTTTTAATTTTAAAATATTTTAAAATACTT
Found at i:3106657 original size:16 final size:16
Alignment explanation
Indices: 3106636--3106667 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3106626 AAAATACTTT
3106636 TTTTAAATTTTTTAAA
1 TTTTAAATTTTTTAAA
*
3106652 TTTTAATTTTTTTAAA
1 TTTTAAATTTTTTAAA
3106668 ATACTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTAAATTTTTTAAA
Found at i:3109988 original size:16 final size:17
Alignment explanation
Indices: 3109955--3109995 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
3109945 ATAAAAAAAA
*
3109955 ATAAAAAA-TTGAAGGG
1 ATAAAAAACTAGAAGGG
3109971 ATAAAAAACTAGAA-GG
1 ATAAAAAACTAGAAGGG
*
3109987 ATGAAAAAC
1 ATAAAAAAC
3109996 ATAATTTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.61, C:0.05, G:0.20, T:0.15
Consensus pattern (17 bp):
ATAAAAAACTAGAAGGG
Found at i:3116219 original size:14 final size:14
Alignment explanation
Indices: 3116181--3116219 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
3116171 TGTTTTTGAG
3116181 TTTATGATATTTTAT
1 TTTAT-ATATTTTAT
* *
3116196 TCTATTTATTTTAT
1 TTTATATATTTTAT
3116210 TTTATATATT
1 TTTATATATT
3116220 ATGTTATTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (14 bp):
TTTATATATTTTAT
Found at i:3120497 original size:42 final size:40
Alignment explanation
Indices: 3120437--3120547 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 40
3120427 GATTTATGTA
* * *
3120437 TAAGACCACGTCTAGGACATCGGCATTATATTTGATTTCGTG
1 TAAGACCACGTCTGGGACAT-GGCATTATA-TTGATTACATG
*
3120479 TAAGACC-CTGTCTGGGACAGTGGCATCGATATTGATTACATG
1 TAAGACCAC-GTCTGGGACA-TGGCAT-TATATTGATTACATG
*
3120521 TAAGACCACGTCTGGGACGTTGGCATT
1 TAAGACCACGTCTGGGAC-ATGGCATT
3120548 GTACGAGTTT
Statistics
Matches: 58, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
41 1 0.02
42 52 0.90
43 5 0.09
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (40 bp):
TAAGACCACGTCTGGGACATGGCATTATATTGATTACATG
Found at i:3122022 original size:5 final size:5
Alignment explanation
Indices: 3122012--3122079 Score: 86
Period size: 5 Copynumber: 13.2 Consensus size: 5
3122002 TAATTATGTT
3122012 TTATA TTATA TTATTA TTATA -TATA TTATA TTATA TTATA TTATA TTAT-
1 TTATA TTATA TTA-TA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
3122061 TATATTA TTATA TATATA T
1 T-TA-TA TTATA T-TATA T
3122080 GACAAAGAAA
Statistics
Matches: 57, Mismatches: 0, Indels: 11
0.84 0.00 0.16
Matches are distributed among these distances:
4 5 0.09
5 38 0.67
6 13 0.23
7 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:3122028 original size:3 final size:3
Alignment explanation
Indices: 3122015--3122071 Score: 56
Period size: 3 Copynumber: 21.0 Consensus size: 3
3122005 TTATGTTTTA
3122015 TAT TA- TAT TAT TAT TA- TAT ATAT TA- TAT TA- TAT TA- TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
3122055 TAT TAT TA- TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT
3122072 ATATATATGA
Statistics
Matches: 46, Mismatches: 0, Indels: 16
0.74 0.00 0.26
Matches are distributed among these distances:
2 14 0.30
3 29 0.63
4 3 0.07
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:3122028 original size:8 final size:8
Alignment explanation
Indices: 3122012--3122073 Score: 76
Period size: 8 Copynumber: 7.8 Consensus size: 8
3122002 TAATTATGTT
3122012 TTATATTA
1 TTATATTA
3122020 -TATTATTA
1 TTA-TATTA
3122028 TTATATATA
1 TTATAT-TA
3122037 TTATATTA
1 TTATATTA
3122045 -TAT-TATA
1 TTATAT-TA
3122052 TTATATTA
1 TTATATTA
3122060 TTATATTA
1 TTATATTA
3122068 TTATAT
1 TTATAT
3122074 ATATATGACA
Statistics
Matches: 48, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
6 1 0.02
7 7 0.15
8 29 0.60
9 11 0.23
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TTATATTA
Found at i:3122154 original size:45 final size:44
Alignment explanation
Indices: 3122088--3122192 Score: 140
Period size: 45 Copynumber: 2.3 Consensus size: 44
3122078 ATGACAAAGA
3122088 AAGAAAGAAAAGAAACAGAGAGCAAAACAAAACA-AAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGCAAAACAAAACAGAAA-AG-GAAGG
* * *
3122134 GAGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAGAAGGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAAAAGGAAGG
3122178 AAGGAAAGAAAGAAA
1 AA-GAAAGAAAGAAA
3122193 GAAAAGAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
44 6 0.11
45 39 0.74
46 8 0.15
ACGTcount: A:0.65, C:0.09, G:0.27, T:0.00
Consensus pattern (44 bp):
AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAAAAGGAAGG
Found at i:3122953 original size:29 final size:30
Alignment explanation
Indices: 3122894--3122951 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
3122884 TCCGAGCCTT
*
3122894 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
3122924 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
3122952 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:3123181 original size:13 final size:13
Alignment explanation
Indices: 3123163--3123194 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
3123153 TTTCCAGCAA
3123163 TTATGAATTTATT
1 TTATGAATTTATT
3123176 TTATGAATTTATT
1 TTATGAATTTATT
*
3123189 TGATGA
1 TTATGA
3123195 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:3123401 original size:50 final size:50
Alignment explanation
Indices: 3123288--3123529 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
3123278 ATTTGGGTAA
* * *
3123288 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
3123344 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
3123394 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
3123444 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
3123494 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
3123530 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:3123477 original size:100 final size:103
Alignment explanation
Indices: 3123288--3123537 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
3123278 ATTTGGGTAA
3123288 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
3123353 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
3123394 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
3123456 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
3123494 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
3123538 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:3126513 original size:46 final size:46
Alignment explanation
Indices: 3126446--3126622 Score: 300
Period size: 46 Copynumber: 3.8 Consensus size: 46
3126436 AGTGTGGAAC
*
3126446 GTAGGTATGGTATTTCAGTAAAGAAAACTATACTGAGTTGTGAAAA
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
*
3126492 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAGAA
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
* *
3126538 GTAGGTATGGTATTTCAGTAACGAAAACCATGCTGAGTTGTGAAAA
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
* *
3126584 GTAGGTATGGTATTTCAATGAAGAAAACCATACTGAGTT
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTT
3126623 ATAGCATTGT
Statistics
Matches: 122, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 122 1.00
ACGTcount: A:0.37, C:0.09, G:0.25, T:0.29
Consensus pattern (46 bp):
GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
Found at i:3128704 original size:20 final size:20
Alignment explanation
Indices: 3128660--3128704 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
3128650 TAATAACAAT
*
3128660 AATATTTTAAATTTAAAACA
1 AATATTTTAAATTTAAAAAA
* *
3128680 TATATTTTAATTTTAAAAAA
1 AATATTTTAAATTTAAAAAA
3128700 AATAT
1 AATAT
3128705 AATTATATGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
AATATTTTAAATTTAAAAAA
Found at i:3129219 original size:21 final size:21
Alignment explanation
Indices: 3129193--3129235 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
3129183 TCAAAAATGA
3129193 TTTTT-GAAAAATTGATTAATT
1 TTTTTGGAAAAATTGA-TAATT
*
3129214 TTTTTGGAAAAGTTGATAATT
1 TTTTTGGAAAAATTGATAATT
3129235 T
1 T
3129236 GTTATGTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (21 bp):
TTTTTGGAAAAATTGATAATT
Found at i:3143240 original size:73 final size:76
Alignment explanation
Indices: 3143116--3143265 Score: 279
Period size: 73 Copynumber: 2.0 Consensus size: 76
3143106 ATATGTGACC
3143116 TGGACTCTTGACATCATCTTAAACTTTTAGTGTCAATACACACATCTACCTCCAACAATCCAT-T
1 TGGACTCTTGACATCATCTTAAACTTTTAGTGTCAATACACACATCTACCTCCAACAATCCATCT
3143180 -GTTATCACTA
66 GGTTATCACTA
3143190 TGGACTCTTGACATCATCTTAAAC-TTTAGTGTCAATACACACATCTACCTCCAACAATCCATCT
1 TGGACTCTTGACATCATCTTAAACTTTTAGTGTCAATACACACATCTACCTCCAACAATCCATCT
3143254 GGTTATCACTA
66 GGTTATCACTA
3143265 T
1 T
3143266 CAGGTTCAAA
Statistics
Matches: 74, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
73 38 0.51
74 25 0.34
75 11 0.15
ACGTcount: A:0.31, C:0.27, G:0.09, T:0.33
Consensus pattern (76 bp):
TGGACTCTTGACATCATCTTAAACTTTTAGTGTCAATACACACATCTACCTCCAACAATCCATCT
GGTTATCACTA
Found at i:3169413 original size:16 final size:16
Alignment explanation
Indices: 3169392--3169422 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3169382 ATGTAATTAT
*
3169392 ATAAAAAAAGTTAAAG
1 ATAAAAAAAATTAAAG
3169408 ATAAAAAAAATTAAA
1 ATAAAAAAAATTAAA
3169423 ATCTTGTACC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (16 bp):
ATAAAAAAAATTAAAG
Found at i:3174432 original size:93 final size:93
Alignment explanation
Indices: 3174273--3174464 Score: 273
Period size: 93 Copynumber: 2.1 Consensus size: 93
3174263 TATTTCATAA
*
3174273 TTCTTTGATATTTAAGAAGTATTCTGTCAATTCTGAACAACCAAGACCATATAACAAACCAGCAT
1 TTCTTTGATATTTAAGAAGTATTCTGTCAATTCTCAACAACCAAGACCATATAACAAACCAGCAT
* *
3174338 ATTTCTCAGTCG-ACCAACTAAAGAAGTT
66 ATTTCTCAGCCGAACC-ACTAAAGAAATT
* * *
3174366 TTCTTTGAT-TTATTAGAGAGTATTCTGTCCATTCTCAAC-ACCAAGACCATATAACACACCAGC
1 TTCTTTGATATT-TAAGA-AGTATTCTGTCAATTCTCAACAACCAAGACCATATAACAAACCAGC
*
3174429 ATATTTCTCGGCCGAACCACTAAAGAAATT
64 ATATTTCTCAGCCGAACCACTAAAGAAATT
3174459 TTCTTT
1 TTCTTT
3174465 CAGTTTCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
92 2 0.02
93 65 0.73
94 22 0.25
ACGTcount: A:0.34, C:0.22, G:0.11, T:0.32
Consensus pattern (93 bp):
TTCTTTGATATTTAAGAAGTATTCTGTCAATTCTCAACAACCAAGACCATATAACAAACCAGCAT
ATTTCTCAGCCGAACCACTAAAGAAATT
Found at i:3175952 original size:17 final size:17
Alignment explanation
Indices: 3175930--3175964 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
3175920 TGTTTATGGA
3175930 TATTA-TTTATTATTTAT
1 TATTATTTTA-TATTTAT
3175947 TATTATTTTATATTTAT
1 TATTATTTTATATTTAT
3175964 T
1 T
3175965 TTTGTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTATTTTATATTTAT
Found at i:3182598 original size:6 final size:6
Alignment explanation
Indices: 3182587--3182612 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
3182577 AACCTTTTCT
3182587 TTTATA TTTATA TTTATA TTTATA TT
1 TTTATA TTTATA TTTATA TTTATA TT
3182613 GAATTGAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTATA
Found at i:3187056 original size:49 final size:49
Alignment explanation
Indices: 3186977--3187108 Score: 126
Period size: 50 Copynumber: 2.7 Consensus size: 49
3186967 TTTAAAGTTT
* * * * *
3186977 CACATTTAAAAATAA-AATAATTGAA-ATAAAATAGAAATTGTGATAATTA
1 CACATTT-AAAATAATTATAATTTAATTTAAAATA-AAATTGTAAAAATTA
* * * *
3187026 TACATTTATAAATAGTTATAATTT-ATTAAAAATTAAACTTGTAAAAATTA
1 CACATTTA-AAATAATTATAATTTAATTTAAAA-TAAAATTGTAAAAATTA
3187076 CACATTTAAAATAATTATAATTTAATTTAAAAT
1 CACATTTAAAATAATTATAATTTAATTTAAAAT
3187109 TATTAATTAA
Statistics
Matches: 66, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
48 1 0.02
49 27 0.41
50 36 0.55
51 2 0.03
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.38
Consensus pattern (49 bp):
CACATTTAAAATAATTATAATTTAATTTAAAATAAAATTGTAAAAATTA
Found at i:3189013 original size:8 final size:8
Alignment explanation
Indices: 3189000--3189024 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
3188990 CGTTTTAGTG
3189000 TGTGTATA
1 TGTGTATA
3189008 TGTGTATA
1 TGTGTATA
3189016 TGTGTATA
1 TGTGTATA
3189024 T
1 T
3189025 ATGTGTGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (8 bp):
TGTGTATA
Found at i:3200922 original size:16 final size:16
Alignment explanation
Indices: 3200896--3200937 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
3200886 GAAAATTGGG
*
3200896 AAGATGG-AAAATTGA
1 AAGATGGAAAAATAGA
* *
3200911 AGGGTGGAAAAATAGA
1 AAGATGGAAAAATAGA
3200927 AAGATGGAAAA
1 AAGATGGAAAA
3200938 TGGAAAGTAA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.55, C:0.00, G:0.31, T:0.14
Consensus pattern (16 bp):
AAGATGGAAAAATAGA
Found at i:3200937 original size:15 final size:15
Alignment explanation
Indices: 3200896--3200944 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
3200886 GAAAATTGGG
*
3200896 AAGATGGAAAATTGA
1 AAGATGGAAAATAGA
* *
3200911 AGGGTGGAAAAATAGA
1 AAGATGG-AAAATAGA
*
3200927 AAGATGGAAAATGGA
1 AAGATGGAAAATAGA
3200942 AAG
1 AAG
3200945 TAATTTTCTT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
15 15 0.56
16 12 0.44
ACGTcount: A:0.53, C:0.00, G:0.33, T:0.14
Consensus pattern (15 bp):
AAGATGGAAAATAGA
Found at i:3201404 original size:35 final size:35
Alignment explanation
Indices: 3201358--3201433 Score: 118
Period size: 35 Copynumber: 2.2 Consensus size: 35
3201348 TTCTTGCAAA
* *
3201358 GCTTTTTGAACTTTTTGTGTGAATATACTTTTGTT
1 GCTTTTTGAACTATTTGAGTGAATATACTTTTGTT
*
3201393 GCTTTTTGAACTATTTGAGTGAATATATTTTTGTT
1 GCTTTTTGAACTATTTGAGTGAATATACTTTTGTT
3201428 G-TTTTT
1 GCTTTTT
3201434 ACTAGAAATC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
34 5 0.13
35 33 0.87
ACGTcount: A:0.18, C:0.07, G:0.17, T:0.58
Consensus pattern (35 bp):
GCTTTTTGAACTATTTGAGTGAATATACTTTTGTT
Found at i:3206713 original size:15 final size:16
Alignment explanation
Indices: 3206687--3206716 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
3206677 CGAATCTCAG
3206687 CTCTTGTTTCTCTTCT
1 CTCTTGTTTCTCTTCT
3206703 CTCTT-TTTCTCTTC
1 CTCTTGTTTCTCTTC
3206717 GAACAACGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.00, C:0.33, G:0.03, T:0.63
Consensus pattern (16 bp):
CTCTTGTTTCTCTTCT
Found at i:3209604 original size:34 final size:34
Alignment explanation
Indices: 3209544--3209609 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 34
3209534 CAAACACCAG
* *
3209544 AAAATATTTTCCAGTAAATTATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTAC-GAAAAGT
*
3209579 AAAACATTTTCCCG-AAATCATTTTACGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACGAAAA
3209610 ATATTTTAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 5 0.18
34 11 0.39
35 12 0.43
ACGTcount: A:0.45, C:0.14, G:0.08, T:0.33
Consensus pattern (34 bp):
AAAACATTTTCCAGTAAATCATTTTACGAAAAGT
Found at i:3209844 original size:18 final size:18
Alignment explanation
Indices: 3209806--3209841 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
3209796 TTATTATTTT
*
3209806 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
3209824 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
3209842 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:3209870 original size:18 final size:18
Alignment explanation
Indices: 3209809--3209870 Score: 53
Period size: 18 Copynumber: 3.7 Consensus size: 18
3209799 TTATTTTTAA
3209809 AATTTACTATTAAAATAA-
1 AATTTA-TATTAAAATAAT
* **
3209827 AATTTA-AATATTA-AAT
1 AATTTATATTAAAATAAT
3209843 AA-TT-TATTAAAATAAT
1 AATTTATATTAAAATAAT
3209859 AATTTATATTAA
1 AATTTATATTAA
3209871 TAATTTATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 10
0.67 0.12 0.20
Matches are distributed among these distances:
15 8 0.24
16 11 0.33
17 2 0.06
18 12 0.36
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
AATTTATATTAAAATAAT
Found at i:3209871 original size:13 final size:13
Alignment explanation
Indices: 3209855--3209881 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3209845 TTTATTAAAA
3209855 TAATAATTTATAT
1 TAATAATTTATAT
3209868 TAATAATTTATAT
1 TAATAATTTATAT
3209881 T
1 T
3209882 TTTATGACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TAATAATTTATAT
Found at i:3210579 original size:14 final size:14
Alignment explanation
Indices: 3210560--3210587 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3210550 TGTAGAACTT
3210560 TTTTAGAATTTTTA
1 TTTTAGAATTTTTA
3210574 TTTTAGAATTTTTA
1 TTTTAGAATTTTTA
3210588 ATATATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (14 bp):
TTTTAGAATTTTTA
Found at i:3210603 original size:18 final size:17
Alignment explanation
Indices: 3210580--3210642 Score: 63
Period size: 19 Copynumber: 3.4 Consensus size: 17
3210570 TTTATTTTAG
*
3210580 AATTTTTAATATATATTT
1 AATTTTTAAAATAT-TTT
3210598 AATTTTTTAAAATATTTT
1 AA-TTTTTAAAATATTTT
*
3210616 GATTTTTTAAAATTATTTT
1 -AATTTTTAAAA-TATTTT
3210635 GAATTTTT
1 -AATTTTT
3210643 TCTGAAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
18 14 0.36
19 25 0.64
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
AATTTTTAAAATATTTT
Found at i:3210606 original size:19 final size:19
Alignment explanation
Indices: 3210582--3210643 Score: 74
Period size: 18 Copynumber: 3.3 Consensus size: 19
3210572 TATTTTAGAA
*
3210582 TTTTTAATATATATTTAAT
1 TTTTTAAAATATATTTAAT
*
3210601 TTTTTAAAATAT-TTTGAT
1 TTTTTAAAATATATTTAAT
3210619 TTTTTAAAAT-TATTTTGAAT
1 TTTTTAAAATATA-TTT-AAT
3210639 TTTTT
1 TTTTT
3210644 CTGAAATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.03
18 15 0.41
19 14 0.38
20 7 0.19
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTTTAAAATATATTTAAT
Found at i:3214641 original size:25 final size:25
Alignment explanation
Indices: 3214591--3214639 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
3214581 AGTTTTCATC
* *
3214591 AAATATATTTATTTATTTTTTAAAT
1 AAATATAATTATTTATTTTGTAAAT
*
3214616 AAATATAATTATTTGTATTTGTAA
1 AAATATAATTATTTAT-TTTGTAA
3214640 TATGTAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (25 bp):
AAATATAATTATTTATTTTGTAAAT
Found at i:3218275 original size:17 final size:18
Alignment explanation
Indices: 3218243--3218276 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3218233 AATTTTCAAG
*
3218243 AATTTAAAATATTTATAA
1 AATTCAAAATATTTATAA
3218261 AATTCAAAA-ATTTATA
1 AATTCAAAATATTTATA
3218277 TTTTTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (18 bp):
AATTCAAAATATTTATAA
Found at i:3222274 original size:21 final size:21
Alignment explanation
Indices: 3222224--3222278 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
3222214 ACCATTGTTT
* *
3222224 CTAATCTCACTGCTACAATAT
1 CTAATCTCACCGCTACAATAA
* * *
3222245 CCAAACTCACCGCTACAGTAA
1 CTAATCTCACCGCTACAATAA
3222266 CTAATCTCACCGC
1 CTAATCTCACCGC
3222279 CACCGCTATT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.33, C:0.36, G:0.07, T:0.24
Consensus pattern (21 bp):
CTAATCTCACCGCTACAATAA
Found at i:3227812 original size:33 final size:32
Alignment explanation
Indices: 3227743--3227812 Score: 83
Period size: 31 Copynumber: 2.2 Consensus size: 32
3227733 ATATTTGAAA
*
3227743 TGTT-ACATTTTAGTCACTTACGTTAACGTGT
1 TGTTAACATTTTAGTCACTAACGTTAACGTGT
*
3227774 T-TTAACATTTTAGTCACTAAGCCGTTAA-TTGT
1 TGTTAACATTTTAGTCACTAA--CGTTAACGTGT
3227806 TGTTAAC
1 TGTTAAC
3227813 GGTGTAACGG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
30 2 0.06
31 16 0.48
32 4 0.12
33 11 0.33
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (32 bp):
TGTTAACATTTTAGTCACTAACGTTAACGTGT
Found at i:3228967 original size:14 final size:14
Alignment explanation
Indices: 3228948--3228978 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
3228938 ATTAAGTGTT
3228948 ATTTTTAAAAAATA
1 ATTTTTAAAAAATA
3228962 ATTTTTAAAAAATA
1 ATTTTTAAAAAATA
3228976 ATT
1 ATT
3228979 AATAAATACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTTAAAAAATA
Found at i:3230825 original size:20 final size:19
Alignment explanation
Indices: 3230776--3230825 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
3230766 TTTTTTTAAT
*
3230776 TCAAATAAATTTATTCGAC
1 TCAACTAAATTTATTCGAC
* *
3230795 TCAACTCAATTTCATTCTAC
1 TCAACTAAATTT-ATTCGAC
*
3230815 TCTACTAAATT
1 TCAACTAAATT
3230826 AGAAAAAACC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.36, C:0.22, G:0.02, T:0.40
Consensus pattern (19 bp):
TCAACTAAATTTATTCGAC
Found at i:3234543 original size:14 final size:14
Alignment explanation
Indices: 3234524--3234552 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3234514 TGTGGCTACT
3234524 TTGTCTATCTGTTA
1 TTGTCTATCTGTTA
3234538 TTGTCTATCTGTTA
1 TTGTCTATCTGTTA
3234552 T
1 T
3234553 CATTGTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.59
Consensus pattern (14 bp):
TTGTCTATCTGTTA
Found at i:3241575 original size:2 final size:2
Alignment explanation
Indices: 3241568--3241592 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3241558 CTGACTCCCT
3241568 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
3241593 TTTCTGTGTT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:3246193 original size:29 final size:29
Alignment explanation
Indices: 3246161--3246220 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
3246151 AAATATCTAA
3246161 AATTAAACTAAAA-TCAAAATTATATATTT
1 AATTAAACTAAAAGT-AAAATTATATATTT
* * * *
3246190 AATTTAATTAAAAGTAAGATTTTATATTT
1 AATTAAACTAAAAGTAAAATTATATATTT
3246219 AA
1 AA
3246221 CAAATACACA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 25 0.96
30 1 0.04
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (29 bp):
AATTAAACTAAAAGTAAAATTATATATTT
Found at i:3246824 original size:21 final size:20
Alignment explanation
Indices: 3246800--3246846 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
3246790 AAATTAAATT
3246800 TTAAAATTTGAAATATAAAAA
1 TTAAAATTTGAAA-ATAAAAA
*
3246821 TTAAAAATTTTAAAATAAAAA
1 TT-AAAATTTGAAAATAAAAA
3246842 -TAAAA
1 TTAAAA
3246847 AAAAGGGGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 4 0.17
20 1 0.04
21 9 0.38
22 10 0.42
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (20 bp):
TTAAAATTTGAAAATAAAAA
Found at i:3246847 original size:21 final size:22
Alignment explanation
Indices: 3246802--3246848 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
3246792 ATTAAATTTT
*
3246802 AAAATTTGAAATATAAAAATTA
1 AAAATTTGAAATATAAAAATAA
*
3246824 AAAATTTTAAA-ATAAAAATAA
1 AAAATTTGAAATATAAAAATAA
3246845 AAAA
1 AAAA
3246849 AAGGGGGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (22 bp):
AAAATTTGAAATATAAAAATAA
Found at i:3255667 original size:22 final size:20
Alignment explanation
Indices: 3255629--3255673 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 20
3255619 ACTTATCCCT
*
3255629 AAATTTTAAGTTTAAATTAA
1 AAATTTTAAGTTCAAATTAA
3255649 AAATTTTAAAAGTTCAAATTAA
1 AAATTTT--AAGTTCAAATTAA
3255671 AAA
1 AAA
3255674 AAAAAACATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.32
22 15 0.68
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (20 bp):
AAATTTTAAGTTCAAATTAA
Found at i:3258127 original size:21 final size:20
Alignment explanation
Indices: 3258093--3258139 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
3258083 GATTAGGGTA
*
3258093 AATTATGTTATTAGTCATCT
1 AATTATATTATTAGTCATCT
*
3258113 AATTATATATATTAGTCATTT
1 AATTATAT-TATTAGTCATCT
3258134 AATTAT
1 AATTAT
3258140 GAAAAGTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.51
Consensus pattern (20 bp):
AATTATATTATTAGTCATCT
Found at i:3258944 original size:31 final size:29
Alignment explanation
Indices: 3258909--3258985 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
3258899 TTAATAGCTC
*
3258909 AGTGACTAAAATGTTACAACACGATAACATA
1 AGTGACTAAAATGTAACAACAC-A-AACATA
* * ***
3258940 AGTGACAAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACAACACAAACATA
3258969 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
3258986 CTAAGGTAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
29 21 0.55
30 1 0.03
31 16 0.42
ACGTcount: A:0.49, C:0.16, G:0.13, T:0.22
Consensus pattern (29 bp):
AGTGACTAAAATGTAACAACACAAACATA
Found at i:3260896 original size:16 final size:16
Alignment explanation
Indices: 3260875--3260908 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3260865 AGATAAGAAA
*
3260875 AATAGGGTAGGACGTT
1 AATAGGGTAGGAAGTT
*
3260891 AATAGGGTTGGAAGTT
1 AATAGGGTAGGAAGTT
3260907 AA
1 AA
3260909 AAAGAGGAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.35, T:0.26
Consensus pattern (16 bp):
AATAGGGTAGGAAGTT
Found at i:3271269 original size:2 final size:2
Alignment explanation
Indices: 3271262--3271287 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3271252 AACCAAACAC
3271262 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
3271288 TTACCAAGGG
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3278887 original size:30 final size:29
Alignment explanation
Indices: 3278830--3278888 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
3278820 ATTTTAAAAA
*
3278830 TTCAAAAAATATAAAAATACATAAATATT
1 TTCAAAAAATATAAAAATAAATAAATATT
* *
3278859 TTCAAAAATATATAATAATAAATTAATATT
1 TTCAAAAA-ATATAAAAATAAATAAATATT
3278889 AAATAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (29 bp):
TTCAAAAAATATAAAAATAAATAAATATT
Found at i:3278908 original size:25 final size:24
Alignment explanation
Indices: 3278872--3278922 Score: 84
Period size: 25 Copynumber: 2.1 Consensus size: 24
3278862 AAAAATATAT
3278872 AATAATAAATTAATATTAAATAAA
1 AATAATAAATTAATATTAAATAAA
*
3278896 AATAATTATATTAATATTAAATAAA
1 AATAA-TAAATTAATATTAAATAAA
3278921 AA
1 AA
3278923 AAAACCCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (24 bp):
AATAATAAATTAATATTAAATAAA
Found at i:3279138 original size:19 final size:20
Alignment explanation
Indices: 3279114--3279165 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 20
3279104 CAATGGTTTT
3279114 TTTTTTTTAAATTTTAAT-A
1 TTTTTTTTAAATTTTAATGA
*
3279133 -TTTTTTTAGAATTTTGATGA
1 TTTTTTTTA-AATTTTAATGA
*
3279153 TTTTTTATAAATT
1 TTTTTTTTAAATT
3279166 CAGAATGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 8 0.29
19 8 0.29
20 5 0.18
21 7 0.25
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (20 bp):
TTTTTTTTAAATTTTAATGA
Found at i:3279155 original size:20 final size:18
Alignment explanation
Indices: 3279115--3279165 Score: 66
Period size: 20 Copynumber: 2.7 Consensus size: 18
3279105 AATGGTTTTT
3279115 TTTTTTTAAATTTTAATA
1 TTTTTTTAAATTTTAATA
*
3279133 TTTTTTTAGAATTTTGATGA
1 TTTTTTTA-AATTTTAAT-A
3279153 TTTTTTATAAATT
1 TTTTTT-TAAATT
3279166 CAGAATGAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 8 0.28
19 8 0.28
20 11 0.38
21 2 0.07
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
TTTTTTTAAATTTTAATA
Found at i:3285687 original size:20 final size:19
Alignment explanation
Indices: 3285657--3285725 Score: 57
Period size: 19 Copynumber: 3.3 Consensus size: 19
3285647 GTGATTACTT
3285657 TTAAGAGTTAAATCATACA
1 TTAAGAGTTAAATCATACA
* *
3285676 TTAAGCAGTTAAGATATTTATTACTT
1 TTAAG-AGTT-A-A-A-TCA-TAC-A
3285702 TTAAGAGTTAAATCATACA
1 TTAAGAGTTAAATCATACA
3285721 TTAAG
1 TTAAG
3285726 CATTTAAGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
19 10 0.26
20 7 0.18
21 3 0.08
22 2 0.05
23 2 0.05
24 3 0.08
25 7 0.18
26 5 0.13
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.38
Consensus pattern (19 bp):
TTAAGAGTTAAATCATACA
Found at i:3285714 original size:45 final size:45
Alignment explanation
Indices: 3285650--3285744 Score: 181
Period size: 45 Copynumber: 2.1 Consensus size: 45
3285640 GAGAAAAGTG
3285650 ATTACTTTTAAGAGTTAAATCATACATTAAGCAGTTAAGATATTT
1 ATTACTTTTAAGAGTTAAATCATACATTAAGCAGTTAAGATATTT
*
3285695 ATTACTTTTAAGAGTTAAATCATACATTAAGCATTTAAGATATTT
1 ATTACTTTTAAGAGTTAAATCATACATTAAGCAGTTAAGATATTT
3285740 ATTAC
1 ATTAC
3285745 AAATTTATTT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.41
Consensus pattern (45 bp):
ATTACTTTTAAGAGTTAAATCATACATTAAGCAGTTAAGATATTT
Found at i:3285723 original size:25 final size:25
Alignment explanation
Indices: 3285650--3285723 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
3285640 GAGAAAAGTG
3285650 ATTACTTTTAAGAGTTAAATCATAC
1 ATTACTTTTAAGAGTTAAATCATAC
**
3285675 ---A---TTAAGCAGTTAAGAT-ATTT
1 ATTACTTTTAAG-AGTTAA-ATCATAC
3285695 ATTACTTTTAAGAGTTAAATCATAC
1 ATTACTTTTAAGAGTTAAATCATAC
3285720 ATTA
1 ATTA
3285724 AGCATTTAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 18
0.62 0.07 0.31
Matches are distributed among these distances:
19 5 0.14
20 8 0.22
21 2 0.06
22 1 0.03
23 1 0.03
24 2 0.06
25 12 0.33
26 5 0.14
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (25 bp):
ATTACTTTTAAGAGTTAAATCATAC
Found at i:3287508 original size:28 final size:29
Alignment explanation
Indices: 3287472--3287538 Score: 102
Period size: 29 Copynumber: 2.3 Consensus size: 29
3287462 ATAAAAAATA
*
3287472 ACTAAAATATTAT-AACTTTTTTTTATTT
1 ACTAAAATATTATAAAATTTTTTTTATTT
3287500 A-TCAAAATATTATAAAATTTTTTTTATTT
1 ACT-AAAATATTATAAAATTTTTTTTATTT
3287529 ACTAAAATAT
1 ACTAAAATAT
3287539 ACAAAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
27 1 0.03
28 11 0.31
29 22 0.63
30 1 0.03
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (29 bp):
ACTAAAATATTATAAAATTTTTTTTATTT
Found at i:3287629 original size:18 final size:18
Alignment explanation
Indices: 3287606--3287647 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
3287596 ACCAAAGGTG
3287606 CCAATGAGATTGGCGGCA
1 CCAATGAGATTGGCGGCA
3287624 CCAATGAGATTGGCGGCA
1 CCAATGAGATTGGCGGCA
3287642 CCAATG
1 CCAATG
3287648 GTGCCAAACG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.29, C:0.24, G:0.31, T:0.17
Consensus pattern (18 bp):
CCAATGAGATTGGCGGCA
Found at i:3287831 original size:19 final size:18
Alignment explanation
Indices: 3287793--3287902 Score: 98
Period size: 19 Copynumber: 5.8 Consensus size: 18
3287783 TCCTTATTTA
3287793 TTATTTTAATTAAATAATAAC
1 TTATTTTAATT---TAATAAC
3287814 TTTATTTTAATTTAATAAAC
1 -TTATTTTAATTTAAT-AAC
* *
3287834 -TATTCTCATTTAATAAC
1 TTATTTTAATTTAATAAC
3287851 TCTATTTTAATTTAATAAAC
1 T-TATTTTAATTTAAT-AAC
* *
3287871 -TATTCTCATTTAATAAC
1 TTATTTTAATTTAATAAC
3287888 TCTATTTTAATTTAA
1 T-TATTTTAATTTAA
3287903 AAAATTAAGT
Statistics
Matches: 74, Mismatches: 8, Indels: 15
0.76 0.08 0.15
Matches are distributed among these distances:
17 6 0.08
18 24 0.32
19 27 0.36
20 6 0.08
22 11 0.15
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (18 bp):
TTATTTTAATTTAATAAC
Found at i:3287837 original size:18 final size:19
Alignment explanation
Indices: 3287816--3287902 Score: 106
Period size: 18 Copynumber: 4.7 Consensus size: 19
3287806 ATAATAACTT
3287816 TATTTTAATTTAATAA-AC
1 TATTTTAATTTAATAACAC
* * *
3287834 TATTCTCATTTAATAACTC
1 TATTTTAATTTAATAACAC
3287853 TATTTTAATTTAATAA-AC
1 TATTTTAATTTAATAACAC
* * *
3287871 TATTCTCATTTAATAACTC
1 TATTTTAATTTAATAACAC
3287890 TATTTTAATTTAA
1 TATTTTAATTTAA
3287903 AAAATTAAGT
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
18 29 0.52
19 27 0.48
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTTTAATTTAATAACAC
Found at i:3287848 original size:37 final size:37
Alignment explanation
Indices: 3287807--3287902 Score: 183
Period size: 37 Copynumber: 2.6 Consensus size: 37
3287797 TTTAATTAAA
*
3287807 TAATAACTTTATTTTAATTTAATAAACTATTCTCATT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
3287844 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
3287881 TAATAACTCTATTTTAATTTAA
1 TAATAACTCTATTTTAATTTAA
3287903 AAAATTAAGT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (37 bp):
TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
Found at i:3287958 original size:19 final size:18
Alignment explanation
Indices: 3287934--3287992 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 18
3287924 ATTTAATTTT
3287934 TTAAATTAAAATAAAGTTA
1 TTAAATTAAAAT-AAGTTA
* *
3287953 TTAAATGAGAAT-AGTTTA
1 TTAAATTAAAATAAG-TTA
3287971 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATA-AGTTA
3287990 TTA
1 TTA
3287993 CTTAATTAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
17 2 0.06
18 13 0.39
19 16 0.48
20 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (18 bp):
TTAAATTAAAATAAGTTA
Found at i:3287983 original size:18 final size:17
Alignment explanation
Indices: 3287934--3287984 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
3287924 ATTTAATTTT
3287934 TTAAATTAAAATAAAGTTA
1 TTAAATTAAAAT--AGTTA
* *
3287953 TTAAATGAGAATAGTTTA
1 TTAAATTAAAATAG-TTA
3287971 TTAAATTAAAATAG
1 TTAAATTAAAATAG
3287985 AGTTATTACT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 2 0.07
18 15 0.56
19 10 0.37
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (17 bp):
TTAAATTAAAATAGTTA
Found at i:3288576 original size:27 final size:27
Alignment explanation
Indices: 3288539--3288621 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
3288529 GTTACATTTT
3288539 AATC-CTTTGGCACCATTGGTGCCACC
1 AATCTCTTTGGCACCATTGGTGCCACC
*
3288565 AATCTCTTTGGCACCATTGGTGCCGCC
1 AATCTCTTTGGCACCATTGGTGCCACC
* *
3288592 AATCTCATTT-GCACCTTTGGTGCCTCC
1 AATCTC-TTTGGCACCATTGGTGCCACC
3288619 AAT
1 AAT
3288622 GTGATTGGCC
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 4 0.08
27 45 0.87
28 3 0.06
ACGTcount: A:0.18, C:0.33, G:0.18, T:0.31
Consensus pattern (27 bp):
AATCTCTTTGGCACCATTGGTGCCACC
Found at i:3288944 original size:30 final size:30
Alignment explanation
Indices: 3288876--3288944 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 30
3288866 TTTAAGATAA
* *
3288876 GTTAAAAAATTATAATTTAATTATTAAATT
1 GTTAAAAAATTATAATTTAATAATTAAATC
* *
3288906 ATTCAAAAAATT-TTATTTAAGTAATTAAATC
1 GTT-AAAAAATTATAATTTAA-TAATTAAATC
3288937 GTTAAAAA
1 GTTAAAAA
3288945 TGTTATGTGA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
30 14 0.44
31 18 0.56
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (30 bp):
GTTAAAAAATTATAATTTAATAATTAAATC
Found at i:3297359 original size:9 final size:9
Alignment explanation
Indices: 3297342--3297378 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
3297332 TTTTTTCTCC
3297342 AAAACCCTA
1 AAAACCCTA
*
3297351 AAAATCCTA
1 AAAACCCTA
3297360 AAAACCCT-
1 AAAACCCTA
3297368 -AAACCCTA
1 AAAACCCTA
3297376 AAA
1 AAA
3297379 TCCAAAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
7 7 0.29
9 17 0.71
ACGTcount: A:0.57, C:0.30, G:0.00, T:0.14
Consensus pattern (9 bp):
AAAACCCTA
Found at i:3300251 original size:21 final size:20
Alignment explanation
Indices: 3300219--3300260 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
3300209 TTGAAAACTA
3300219 ATTTCCAATAATATAATATTT
1 ATTTCCAATAATATAAT-TTT
*
3300240 ATTT-CAATTAATTTAATTTT
1 ATTTCCAA-TAATATAATTTT
3300260 A
1 A
3300261 CTTGATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.52
Consensus pattern (20 bp):
ATTTCCAATAATATAATTTT
Found at i:3302831 original size:41 final size:41
Alignment explanation
Indices: 3302786--3303054 Score: 387
Period size: 41 Copynumber: 6.6 Consensus size: 41
3302776 GGTTTTAAAA
*
3302786 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGTTATAAA
1 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGTTATAAG
3302827 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGTTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGTTATAAG
* * * *
3302868 CCTAGCAAGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGTTATAAG
* * **
3302909 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGACTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGTTATAAG
* * *
3302950 CCTAGCAGGCTAAGTGCCGGTGATTTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGTTATAAG
3302991 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTT-TAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGG-TTATAAG
* * *
3303032 CCTAACAAGCTAAGTGCCAGTGA
1 CCTAGCAGGCTAAGTGCCGGTGA
3303055 ATCTGTTTAA
Statistics
Matches: 211, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
41 210 1.00
42 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.22
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGTTATAAG
Found at i:3312518 original size:44 final size:44
Alignment explanation
Indices: 3312468--3312913 Score: 178
Period size: 44 Copynumber: 10.1 Consensus size: 44
3312458 CTGTAATCTC
** *
3312468 AGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCACTACTGCTT
1 AGGGAGGTAAAATCCGCCATCTTCAATCTACTCCACTACTGCTT
* * * ** * * * **
3312512 AGGGAGGCAATATCTGAAATCTTCAATCTATTCCGCTGCTGCCC
1 AGGGAGGTAAAATCCGCCATCTTCAATCTACTCCACTACTGCTT
* * ** *** * **
3312556 AGGGAAGTAGAAT-TACTGGCTTCAATGTACTCCACTACAACTT
1 AGGGAGGTAAAATCCGCCATCTTCAATCTACTCCACTACTGCTT
* *
3312599 CAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTT
1 -AGGGAGGTAAAATCCGCCATCTTCAATCTACTCCACTACTGCTT
* * * ** * * * *
3312644 AGGGAGGCAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCT
1 AGGGAGGTAAAATCCGCCATCTTCAATCTACTCCACTACTGCTT
* * ** *** * * **
3312688 AGGGAAGTAGAAT-TACTGGCTTCAATGTACTCCACTGCAACTT
1 AGGGAGGTAAAATCCGCCATCTTCAATCTACTCCACTACTGCTT
* * *
3312731 CAAGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTT
1 -AGGGAGGTAAAATCCGCCATCTTCAATCTACTCCACTACTGCTT
* * * * ** * * * **
3312776 AGAGAGGCAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCC
1 AGGGAGGTAAAATCCGCCATCTTCAATCTACTCCACTACTGCTT
* * * ** *** * **
3312820 AAGGAAGTAGAAT-TACTGGCTTCAATGTACTCCACTACAACTT
1 AGGGAGGTAAAATCCGCCATCTTCAATCTACTCCACTACTGCTT
* * * *
3312863 CAGTGAGGTAAAATCCGTCATCTTCGATCTGCTCCACTACTGCTT
1 -AGGGAGGTAAAATCCGCCATCTTCAATCTACTCCACTACTGCTT
3312908 AGGGAG
1 AGGGAG
3312914 ACAAGATCTG
Statistics
Matches: 265, Mismatches: 131, Indels: 12
0.65 0.32 0.03
Matches are distributed among these distances:
43 53 0.20
44 154 0.58
45 58 0.22
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (44 bp):
AGGGAGGTAAAATCCGCCATCTTCAATCTACTCCACTACTGCTT
Found at i:3313220 original size:132 final size:132
Alignment explanation
Indices: 3312294--3313197 Score: 1371
Period size: 132 Copynumber: 6.9 Consensus size: 132
3312284 TGCCGACCGG
* * *
3312294 GGGAA-TAGAATTACTGGCTTCAATATACTCCGCTGCAACCTCAGGGAGGTAAAATCTGCCATCT
1 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCGCCATCT
* * * * * *
3312358 TTGATCTGCTCCAATACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCC
66 TCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCC
3312423 CA
131 CA
* * *
3312425 GGGAAATAGAATTACTGGCTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCCGCCATCT
1 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCGCCATCT
* * *
3312490 TTGATCTGCTCCACTACTGCTTAGGGAGGCAATATCTGAAATCTTCAATCTATTCCGCTGCTGCC
66 TCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCC
3312555 CA
131 CA
* *
3312557 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTACAACTTCAGGGAGGTAAAATCCGCCATCT
1 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCGCCATCT
*
3312622 TCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCC
66 TCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCC
*
3312687 TA
131 CA
* *
3312689 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACTTCAAGGAGGTAAAATCCGCCATCT
1 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCGCCATCT
* *
3312754 TCGATCTGCTCCACTACTGCTTAGAGAGGCAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCC
66 TCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCC
3312819 CA
131 CA
* * * * *
3312821 AGGAAGTAGAATTACTGGCTTCAATGTACTCCACTACAACTTCAGTGAGGTAAAATCCGTCATCT
1 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCGCCATCT
* *
3312886 TCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTTCGTTGCTGCC
66 TCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCC
3312951 CA
131 CA
* * * *
3312953 GGGAAGTAAAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGTCATCT
1 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCGCCATCT
* * * *
3313018 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAAAATCTTCAGTCTATTCCACTGCTGCC
66 TCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCC
*
3313083 AA
131 CA
* * *
3313085 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGTCATCT
1 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCGCCATCT
* * **
3313150 TCGATCTGCCCCACTACTGCTCAAGGG-GACAAGATCTGCTATCTTCAA
66 TCGATCTGCTCCACTACTGCT-TAGGGAGACAAGATCTGAAATCTTCAA
3313198 CCTGCTCCAC
Statistics
Matches: 716, Mismatches: 55, Indels: 3
0.93 0.07 0.00
Matches are distributed among these distances:
131 5 0.01
132 707 0.99
133 4 0.01
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (132 bp):
GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCGCCATCT
TCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCC
CA
Found at i:3318988 original size:21 final size:21
Alignment explanation
Indices: 3318941--3318988 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
3318931 GCATATGGAT
*
3318941 ATAAAAATAATAAAATGAAAA
1 ATAATAATAATAAAATGAAAA
* * **
3318962 AAAATAATAATACAATGTTAA
1 ATAATAATAATAAAATGAAAA
3318983 ATAATA
1 ATAATA
3318989 TAAAAGAAAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (21 bp):
ATAATAATAATAAAATGAAAA
Done.