Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 359 of 410
Found at i:110671639 original size:12 final size:12
Alignment explanation
Indices: 110671622--110671669 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 12
110671612 AATTAAAGTA
110671622 AAATAATATTTT
1 AAATAATATTTT
*
110671634 AAATAAT-TATT
1 AAATAATATTTT
*
110671645 -AATAATATTAT
1 AAATAATATTTT
110671656 AAA-AATA-TTT
1 AAATAATATTTT
110671666 AAAT
1 AAAT
110671670 GTTCTCGTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
10 11 0.38
11 9 0.31
12 9 0.31
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
AAATAATATTTT
Found at i:110677163 original size:11 final size:12
Alignment explanation
Indices: 110677134--110677166 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
110677124 GATTGAATGT
110677134 TCAAAAAGTCTA
1 TCAAAAAGTCTA
110677146 TCAAAAAGTCTA
1 TCAAAAAGTCTA
*
110677158 CCAAAAAGT
1 TCAAAAAGT
110677167 GGCTAGATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.52, C:0.18, G:0.09, T:0.21
Consensus pattern (12 bp):
TCAAAAAGTCTA
Found at i:110679053 original size:21 final size:21
Alignment explanation
Indices: 110679029--110679070 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
110679019 TGGATACCTT
110679029 AATTGACT-GACCAAACATTAA
1 AATT-ACTGGACCAAACATTAA
*
110679050 AATTACTGGACCAAACTTTAA
1 AATTACTGGACCAAACATTAA
110679071 TATGACACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (21 bp):
AATTACTGGACCAAACATTAA
Found at i:110680906 original size:24 final size:24
Alignment explanation
Indices: 110680872--110680921 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
110680862 ATTAATTTCA
110680872 TTTCAAATATTACTATTTATTATTT
1 TTTCAAATATTACTATTT-TTATTT
**
110680897 TTTC-AATATTTTTATTTTTATTT
1 TTTCAAATATTACTATTTTTATTT
110680920 TT
1 TT
110680922 CTAACTACAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 8 0.35
24 11 0.48
25 4 0.17
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (24 bp):
TTTCAAATATTACTATTTTTATTT
Found at i:110681715 original size:12 final size:12
Alignment explanation
Indices: 110681698--110681725 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
110681688 TGTTACCCTT
110681698 AATATATTATAA
1 AATATATTATAA
110681710 AATATATTATAA
1 AATATATTATAA
110681722 AATA
1 AATA
110681726 AAATAAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
AATATATTATAA
Found at i:110691315 original size:24 final size:23
Alignment explanation
Indices: 110691287--110691331 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 23
110691277 AAACATATAC
110691287 TAAATATATAATAATAAT-TTAATG
1 TAAATAT-TAA-AATAATATTAATG
110691311 TAAATATTAAAATAATATTAA
1 TAAATATTAAAATAATATTAA
110691332 GATGGCTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 6 0.30
23 7 0.35
24 7 0.35
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (23 bp):
TAAATATTAAAATAATATTAATG
Found at i:110692652 original size:2 final size:2
Alignment explanation
Indices: 110692645--110692678 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
110692635 TCTAAAGTAA
110692645 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
110692679 GTATGTGACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:110697072 original size:19 final size:19
Alignment explanation
Indices: 110697013--110697083 Score: 61
Period size: 19 Copynumber: 3.5 Consensus size: 19
110697003 AGTATTTGTT
*
110697013 AATAATAAAGATTATTGAA
1 AATAATAAAAATTATTGAA
* * *
110697032 AATATTTAATTAAAATATTTGAT
1 AATA-ATAA--AAATTA-TTGAA
110697055 AATAATAAAAATTATTGAA
1 AATAATAAAAATTATTGAA
*
110697074 AATATTAAAA
1 AATAATAAAA
110697084 TTCATTAATA
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
19 17 0.43
20 8 0.20
22 7 0.17
23 8 0.20
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.37
Consensus pattern (19 bp):
AATAATAAAAATTATTGAA
Found at i:110705678 original size:18 final size:18
Alignment explanation
Indices: 110705640--110705678 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
110705630 GTTATGTTTG
**
110705640 ATTTTAAAATTTAATCGA
1 ATTTTAAAATTTAATAAA
*
110705658 ATTTTAAATTTTAATAAA
1 ATTTTAAAATTTAATAAA
110705676 ATT
1 ATT
110705679 AATATATATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (18 bp):
ATTTTAAAATTTAATAAA
Found at i:110706739 original size:16 final size:16
Alignment explanation
Indices: 110706718--110706794 Score: 77
Period size: 16 Copynumber: 4.8 Consensus size: 16
110706708 TTTTACCCGT
110706718 GTTTTTTAAGGTTA-G
1 GTTTTTTAAGGTTATG
*
110706733 AGTTTTTTAAGGTT-TA
1 -GTTTTTTAAGGTTATG
* *
110706749 ATTAATTTAAGGTTATG
1 GTT-TTTTAAGGTTATG
* *
110706766 GCTTTTTAAGATTATG
1 GTTTTTTAAGGTTATG
110706782 GTTTTTTAAGGTT
1 GTTTTTTAAGGTT
110706795 TAGAATTTAA
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
15 2 0.04
16 44 0.92
17 2 0.04
ACGTcount: A:0.25, C:0.01, G:0.21, T:0.53
Consensus pattern (16 bp):
GTTTTTTAAGGTTATG
Found at i:110707307 original size:27 final size:27
Alignment explanation
Indices: 110707276--110707332 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
110707266 TTTTAGGGTT
110707276 AATTCATTAAATTAACTATTAATTTTA
1 AATTCATTAAATTAACTATTAATTTTA
*
110707303 AATTCATTAAATTAATTATTAATTTTA
1 AATTCATTAAATTAACTATTAATTTTA
110707330 AAT
1 AAT
110707333 ACTAAATACT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (27 bp):
AATTCATTAAATTAACTATTAATTTTA
Found at i:110710653 original size:18 final size:18
Alignment explanation
Indices: 110710611--110710653 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
110710601 GACTAGAAAA
* * *
110710611 AGGAAACATATAAGGGTT
1 AGGATACATATAAAGGCT
*
110710629 AGAATACATATAAAGGCT
1 AGGATACATATAAAGGCT
110710647 AGGATAC
1 AGGATAC
110710654 GCATCTAGCA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.09, G:0.23, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAAGGCT
Found at i:110711246 original size:7 final size:7
Alignment explanation
Indices: 110711234--110711269 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
110711224 TATTACTTAT
110711234 ATACATA
1 ATACATA
110711241 ATACATA
1 ATACATA
110711248 ATACATA
1 ATACATA
110711255 ATACATA
1 ATACATA
110711262 ATACATA
1 ATACATA
110711269 A
1 A
110711270 GACTAAATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.58, C:0.14, G:0.00, T:0.28
Consensus pattern (7 bp):
ATACATA
Found at i:110712242 original size:48 final size:49
Alignment explanation
Indices: 110712184--110712292 Score: 116
Period size: 48 Copynumber: 2.2 Consensus size: 49
110712174 AAAATTGCAT
*
110712184 AAATTATTAA-TACAAACATCATAAATGAAAAAAAAATCAAGCAGTATTG-
1 AAATT-TTAATTACAAACAT-ATAAATGAAAAAAAAATCAAACAGTATTGC
* ** * * *
110712233 AAATTTTAATTATAATGATATAAATGAATAAAATATCAAATAGTATTGC
1 AAATTTTAATTACAAACATATAAATGAAAAAAAAATCAAACAGTATTGC
110712282 AAA-TTTAATTA
1 AAATTTTAATTA
110712293 AATTTGCATA
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
48 37 0.73
49 14 0.27
ACGTcount: A:0.54, C:0.06, G:0.07, T:0.32
Consensus pattern (49 bp):
AAATTTTAATTACAAACATATAAATGAAAAAAAAATCAAACAGTATTGC
Found at i:110712304 original size:48 final size:47
Alignment explanation
Indices: 110712203--110712337 Score: 139
Period size: 48 Copynumber: 2.8 Consensus size: 47
110712193 ATACAAACAT
* **
110712203 CATAAATGAAAAAAAAATCAAGCAGTATTGAAATTTTAATTATAATGA
1 CATAAATGAAAAAAATATCAAATAGTATTGAAA-TTTAATTATAATGA
* *
110712251 TATAAATGAATAAAATATCAAATAGTATTGCAAATTTAATTA-AATTTG-
1 CATAAATGAAAAAAATATCAAATAGTATTG-AAATTTAATTATAA--TGA
* * *
110712299 CATAAATTAAAAAAATGTCGAATAGTATTGAAAATTTAA
1 CATAAATGAAAAAAATATCAAATAGTATTG-AAATTTAA
110712338 AATTATCACT
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
47 2 0.03
48 66 0.90
49 5 0.07
ACGTcount: A:0.53, C:0.05, G:0.10, T:0.33
Consensus pattern (47 bp):
CATAAATGAAAAAAATATCAAATAGTATTGAAATTTAATTATAATGA
Found at i:110713622 original size:9 final size:9
Alignment explanation
Indices: 110713608--110713668 Score: 58
Period size: 9 Copynumber: 6.9 Consensus size: 9
110713598 AAAAAAAACA
110713608 TAAAAAGTAT
1 TAAAAA-TAT
110713618 TAAAAATA-
1 TAAAAATAT
*
110713626 TAAATACTAT
1 TAAA-AATAT
110713636 TAAAAATA-
1 TAAAAATAT
110713644 -AAAAATAT
1 TAAAAATAT
110713652 TAAAAATCA-
1 TAAAAAT-AT
110713661 TAAAAATA
1 TAAAAATA
110713669 ATTTTAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
7 7 0.16
8 5 0.11
9 21 0.48
10 11 0.25
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (9 bp):
TAAAAATAT
Found at i:110713652 original size:16 final size:17
Alignment explanation
Indices: 110713601--110713668 Score: 84
Period size: 18 Copynumber: 3.9 Consensus size: 17
110713591 AAATGTAAAA
*
110713601 AAAAACATAAAAAGTATT
1 AAAAATATAAAAA-TATT
*
110713619 AAAAATATAAATACTATT
1 AAAAATATAAA-AATATT
110713637 AAAAATA-AAAAATATT
1 AAAAATATAAAAATATT
110713653 AAAAATCATAAAAATA
1 AAAAAT-ATAAAAATA
110713669 ATTTTAAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
16 11 0.25
17 4 0.09
18 28 0.64
19 1 0.02
ACGTcount: A:0.69, C:0.04, G:0.01, T:0.25
Consensus pattern (17 bp):
AAAAATATAAAAATATT
Found at i:110713681 original size:10 final size:10
Alignment explanation
Indices: 110713641--110713702 Score: 54
Period size: 10 Copynumber: 6.0 Consensus size: 10
110713631 ACTATTAAAA
110713641 ATAAAAAA-T
1 ATAAAAAATT
* *
110713650 ATTAAAAATC
1 ATAAAAAATT
110713660 ATAAAAATAATT
1 AT-AAAA-AATT
*
110713672 TTAAAAAATT
1 ATAAAAAATT
*
110713682 ACAAAAAATT
1 ATAAAAAATT
110713692 ATAGAAAAATT
1 ATA-AAAAATT
110713703 TAAGTAATAA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
9 7 0.17
10 16 0.39
11 14 0.34
12 4 0.10
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:110719030 original size:2 final size:2
Alignment explanation
Indices: 110719023--110719055 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
110719013 TGAATCAAGG
*
110719023 TC TC TC TC TC TC TC TC TC TT TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
110719056 ATATATATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:110722558 original size:17 final size:17
Alignment explanation
Indices: 110722536--110722569 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
110722526 ATCCTTATAT
*
110722536 AAGAAAATAAGCAAATA
1 AAGAAAATAAGAAAATA
*
110722553 AAGAAACTAAGAAAATA
1 AAGAAAATAAGAAAATA
110722570 GAAATATGCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.06, G:0.12, T:0.12
Consensus pattern (17 bp):
AAGAAAATAAGAAAATA
Found at i:110725845 original size:2 final size:2
Alignment explanation
Indices: 110725840--110725882 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
110725830 AAAAAAAGGA
110725840 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
110725882 A
1 A
110725883 CAGGTGCTAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:110728493 original size:140 final size:140
Alignment explanation
Indices: 110728241--110728521 Score: 463
Period size: 140 Copynumber: 2.0 Consensus size: 140
110728231 TGGAATTTTC
* * *
110728241 ATTAGTTCTGAAATTTCAATTTTGCGTAGTCCTAAAATATTATGGTATCTATGTATCCATATCCT
1 ATTAGTTCTGAAATTTCAATTTTGCATAGTCCTAAAATATTATGGTATCCATGTATCCATATCCA
* *
110728306 GCTCTCATACTCTTCATAGCCTACTCTACTAGTCCAAAAGTTTAGATGAAAGGAGTCAACCTTGG
66 GCTCTCAGACTCTTCATAGCCTACTCTACTAGTCCAAAAGTTTAGATGAAAGGAGTCAACCTAGG
110728371 ATCAAATCTA
131 ATCAAATCTA
* * * *
110728381 ATTAGTTCTGAAATTTCAATTTTGTATAGTCCTATAATATTATGGTATCCATGTATCCTTATTCA
1 ATTAGTTCTGAAATTTCAATTTTGCATAGTCCTAAAATATTATGGTATCCATGTATCCATATCCA
* *
110728446 GCTCTCAGACTTTTCATAGCCTTCTCTACTAGTCCAAAAGTTTAGATGAAAGGAGTCAACCTAGG
66 GCTCTCAGACTCTTCATAGCCTACTCTACTAGTCCAAAAGTTTAGATGAAAGGAGTCAACCTAGG
110728511 ATCAAATCTA
131 ATCAAATCTA
110728521 A
1 A
110728522 ACTAGAACCC
Statistics
Matches: 130, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
140 130 1.00
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (140 bp):
ATTAGTTCTGAAATTTCAATTTTGCATAGTCCTAAAATATTATGGTATCCATGTATCCATATCCA
GCTCTCAGACTCTTCATAGCCTACTCTACTAGTCCAAAAGTTTAGATGAAAGGAGTCAACCTAGG
ATCAAATCTA
Found at i:110732116 original size:17 final size:17
Alignment explanation
Indices: 110732094--110732146 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
110732084 TAAAAATAAA
110732094 TTTTAATTTTATTTATT
1 TTTTAATTTTATTTATT
110732111 TTTTAATTTTA---ATT
1 TTTTAATTTTATTTATT
110732125 TTATTAATATTTATATTATT
1 TT-TTAAT-TTTAT-TTATT
110732145 TT
1 TT
110732147 CAATAATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
14 5 0.17
15 5 0.17
16 4 0.13
17 11 0.37
20 5 0.17
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTAATTTTATTTATT
Found at i:110733557 original size:67 final size:67
Alignment explanation
Indices: 110733443--110733572 Score: 181
Period size: 67 Copynumber: 1.9 Consensus size: 67
110733433 CCAACTGGCT
* *
110733443 AGTTAGCACTAATTTAAACAACCCCTTTAGCACCAATTTAAGGTTTAAAAAGAAAAAGAAGAATA
1 AGTTAGCACCAATTTAAACAACCCCTTTAACACCAATTTAAGGTTTAAAAAGAAAAAGAAGAATA
110733508 AC
66 AC
* * * * *
110733510 AGTTAGCACCAATTTAAATAGCCCTTTTAACACCAATTT-AGGTTTTAAAAAGAGAAAGGAGAA
1 AGTTAGCACCAATTTAAACAACCCCTTTAACACCAATTTAAGG-TTTAAAAAGAAAAAGAAGAA
110733573 GAAGGAGTGT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
66 3 0.05
67 52 0.95
ACGTcount: A:0.45, C:0.15, G:0.14, T:0.25
Consensus pattern (67 bp):
AGTTAGCACCAATTTAAACAACCCCTTTAACACCAATTTAAGGTTTAAAAAGAAAAAGAAGAATA
AC
Found at i:110734555 original size:42 final size:42
Alignment explanation
Indices: 110734389--110734556 Score: 203
Period size: 42 Copynumber: 4.0 Consensus size: 42
110734379 CATTTTCTCG
** * * * * *
110734389 ATGCCATAGTTCAACTATTGTCTTACACATCTTCACATAAT-G
1 ATGCCATAGCCCAGCTATGGTCTTACACATATTCATAT-ATCA
* *
110734431 ATGCCATAGCCCAGCTATGGTTTTACACATATTCATATATCG
1 ATGCCATAGCCCAGCTATGGTCTTACACATATTCATATATCA
*
110734473 ATGCCATAGCCCAGATATGGTCTTACACATATTCATATATCA
1 ATGCCATAGCCCAGCTATGGTCTTACACATATTCATATATCA
* * *
110734515 ATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCA
1 ATGCCATAGCCCAGCTATGGTCTTACACATATTCATATATCA
110734557 CATATCGGTG
Statistics
Matches: 111, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
41 2 0.02
42 109 0.98
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (42 bp):
ATGCCATAGCCCAGCTATGGTCTTACACATATTCATATATCA
Found at i:110734571 original size:49 final size:48
Alignment explanation
Indices: 110734498--110734603 Score: 140
Period size: 49 Copynumber: 2.2 Consensus size: 48
110734488 TATGGTCTTA
* *
110734498 CACATATTCATATATCAATGCCATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCAATGCCATAGCCCAGCTATAGTCTTACACG-AAT
** * *
110734548 CACATATCACATATCGGTGCCATAGCCCGGTTATAGTCTTACACGAAT
1 CACATATCACATATCAATGCCATAGCCCAGCTATAGTCTTACACGAAT
110734596 CACATATC
1 CACATATC
110734604 TCACTGATGC
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
48 11 0.22
49 33 0.66
50 6 0.12
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.28
Consensus pattern (48 bp):
CACATATCACATATCAATGCCATAGCCCAGCTATAGTCTTACACGAAT
Found at i:110734738 original size:31 final size:31
Alignment explanation
Indices: 110734703--110734820 Score: 175
Period size: 31 Copynumber: 3.8 Consensus size: 31
110734693 CTTGTCACTT
* *
110734703 GTAGCCGAAGCTACCACTATTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
110734734 GTAGCCGGTA-CTACCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
110734765 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
110734796 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
110734821 TGTCATTTGT
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
30 2 0.03
31 75 0.95
32 2 0.03
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:110734907 original size:49 final size:50
Alignment explanation
Indices: 110734796--110734971 Score: 257
Period size: 49 Copynumber: 3.5 Consensus size: 50
110734786 CACTGATCAG
* * * *
110734796 GTAGCTGAAGCTACCACTTTTCACTTGTCA-TTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
110734847 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCA-ATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
*
110734896 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGACAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
* *
110734946 GCAGCCGAAGCTATCATTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
110734972 GTTGCCATGG
Statistics
Matches: 116, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
49 49 0.42
50 41 0.35
51 26 0.22
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
Found at i:110739834 original size:42 final size:42
Alignment explanation
Indices: 110739668--110739835 Score: 212
Period size: 42 Copynumber: 4.0 Consensus size: 42
110739658 CATTTTCTCG
** * * *
110739668 ATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAAT-G
1 ATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-ATCA
* * *
110739710 ATGCCATAGCCCAGCTATGGTTTTACACATATTCATATATCG
1 ATGCCATAGCCCAGCTATGGTCTTACACATATTCACATATCA
* *
110739752 ATGCCATAGCCCAGATATGGTCTTACACATATTCATATATCA
1 ATGCCATAGCCCAGCTATGGTCTTACACATATTCACATATCA
* *
110739794 ATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCA
1 ATGCCATAGCCCAGCTATGGTCTTACACATATTCACATATCA
110739836 CATATCGGTG
Statistics
Matches: 112, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
41 2 0.02
42 110 0.98
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (42 bp):
ATGCCATAGCCCAGCTATGGTCTTACACATATTCACATATCA
Found at i:110739850 original size:49 final size:48
Alignment explanation
Indices: 110739777--110739882 Score: 140
Period size: 49 Copynumber: 2.2 Consensus size: 48
110739767 TATGGTCTTA
* *
110739777 CACATATTCATATATCAATGCCATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCAATGCCATAGCCCAGCTATAGTCTTACACG-AAT
** * *
110739827 CACATATCACATATCGGTGCCATAGCCCGGTTATAGTCTTACACGAAT
1 CACATATCACATATCAATGCCATAGCCCAGCTATAGTCTTACACGAAT
110739875 CACATATC
1 CACATATC
110739883 TCACTGATGC
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
48 11 0.22
49 33 0.66
50 6 0.12
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.28
Consensus pattern (48 bp):
CACATATCACATATCAATGCCATAGCCCAGCTATAGTCTTACACGAAT
Found at i:110740017 original size:31 final size:31
Alignment explanation
Indices: 110739982--110740130 Score: 228
Period size: 31 Copynumber: 4.8 Consensus size: 31
110739972 CTTGTCACTT
* *
110739982 GTAGCCGAAGCTACCACTATTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
110740013 GTAGCCGGTA-CTACCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
110740044 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
110740075 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
110740106 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
110740131 TGTCATTTGT
Statistics
Matches: 110, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
30 2 0.02
31 106 0.96
32 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:110740212 original size:50 final size:50
Alignment explanation
Indices: 110740106--110740282 Score: 284
Period size: 50 Copynumber: 3.5 Consensus size: 50
110740096 CACTGATCAG
* * * *
110740106 GTAGCTGAAGCTACCACTTTTCACTTGTCA-TTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
110740157 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
*
110740207 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGACAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
110740257 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
110740283 GTTGCCATGG
Statistics
Matches: 120, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
50 94 0.78
51 26 0.22
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
Found at i:110742498 original size:23 final size:23
Alignment explanation
Indices: 110742455--110742498 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
110742445 CCAATTCAAC
*
110742455 ATATTTTCAAGATAAATTCATGT
1 ATATTTTCAAGATAAAGTCATGT
*
110742478 ATATTTAT-AAGATAACGTCAT
1 ATATTT-TCAAGATAAAGTCAT
110742499 CACATACCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 17 0.94
24 1 0.06
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (23 bp):
ATATTTTCAAGATAAAGTCATGT
Found at i:110748131 original size:17 final size:16
Alignment explanation
Indices: 110748111--110748159 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
110748101 CAAAAACATA
110748111 AAAAGAGAAATTAAAAG
1 AAAA-AGAAATTAAAAG
* *
110748128 AAAATATAAATAAAAAG
1 AAAA-AGAAATTAAAAG
110748145 AAAAAGAAATCTAAA
1 AAAAAGAAAT-TAAA
110748160 GACAAATGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 5 0.19
17 21 0.81
ACGTcount: A:0.73, C:0.02, G:0.10, T:0.14
Consensus pattern (16 bp):
AAAAAGAAATTAAAAG
Found at i:110749448 original size:24 final size:24
Alignment explanation
Indices: 110749421--110749469 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
110749411 TCAGTAAAAC
110749421 ATGAATGACAATATCACTAATCAA
1 ATGAATGACAATATCACTAATCAA
*
110749445 ATGAATGACAATATCACTAGTCAA
1 ATGAATGACAATATCACTAATCAA
110749469 A
1 A
110749470 CACATCGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.49, C:0.16, G:0.10, T:0.24
Consensus pattern (24 bp):
ATGAATGACAATATCACTAATCAA
Found at i:110749815 original size:19 final size:20
Alignment explanation
Indices: 110749782--110749824 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
110749772 AATAAGTAAA
*
110749782 AAAATGAAAAAAAAGAAACT
1 AAAATGAAAAAAAAGAAAAT
*
110749802 AAAAT-AAAATAAAGAAAAT
1 AAAATGAAAAAAAAGAAAAT
110749821 AAAA
1 AAAA
110749825 AATATAGGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.79, C:0.02, G:0.07, T:0.12
Consensus pattern (20 bp):
AAAATGAAAAAAAAGAAAAT
Found at i:110753785 original size:6 final size:6
Alignment explanation
Indices: 110753761--110753802 Score: 66
Period size: 6 Copynumber: 6.8 Consensus size: 6
110753751 AGTAAATTAA
*
110753761 AAAATAT AAAAAT ACAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAA-AT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
110753803 AATGTTCCTA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
6 29 0.88
7 4 0.12
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:110754047 original size:108 final size:108
Alignment explanation
Indices: 110753858--110754074 Score: 335
Period size: 108 Copynumber: 2.0 Consensus size: 108
110753848 ATGGGTCATG
* *
110753858 AAACTAACTAATATTTCGACAAAGGCAAGCGTACCTATCGAATAGTAGTATAGCTATGATGAGTT
1 AAACTAACTAATATTTCGACAAAGGCAAGCGCACCTATCGAATAATAGTATAGCTATGATGAGTT
** *
110753923 TGGAATATTGTATTCACAAGGACTAAAAGTACTAGTAATAACT
66 CAGAATATTATATTCACAAGGACTAAAAGTACTAGTAATAACT
* * * * *
110753966 AAACTAACTACTATTTCGACGAAGGTAAGCGCACTTATCGAATAATAGTATAGCTATGGTGAGTT
1 AAACTAACTAATATTTCGACAAAGGCAAGCGCACCTATCGAATAATAGTATAGCTATGATGAGTT
*
110754031 CAGAATTTTATATTCACAAGGACTAAAAGTACTAGTAATAACT
66 CAGAATATTATATTCACAAGGACTAAAAGTACTAGTAATAACT
110754074 A
1 A
110754075 TCTTTATATT
Statistics
Matches: 98, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
108 98 1.00
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (108 bp):
AAACTAACTAATATTTCGACAAAGGCAAGCGCACCTATCGAATAATAGTATAGCTATGATGAGTT
CAGAATATTATATTCACAAGGACTAAAAGTACTAGTAATAACT
Found at i:110756558 original size:42 final size:42
Alignment explanation
Indices: 110756512--110756622 Score: 152
Period size: 42 Copynumber: 2.6 Consensus size: 42
110756502 ATAGTTCAAC
* *
110756512 TATGGTCTTACACATCTTCACATAAT-GATGCCATAGCCCAGA
1 TATGGTCTTACACATATTCACAT-ATCAATGCCATAGCCCAGA
* *
110756554 TATGGTCTTACACATATTCATATATCAATGCCATAGCCCAGC
1 TATGGTCTTACACATATTCACATATCAATGCCATAGCCCAGA
* *
110756596 TATGGTCTTACACGTAATCACATATCA
1 TATGGTCTTACACATATTCACATATCA
110756623 CATATCGGTG
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 2 0.03
42 59 0.97
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.31
Consensus pattern (42 bp):
TATGGTCTTACACATATTCACATATCAATGCCATAGCCCAGA
Found at i:110756637 original size:49 final size:48
Alignment explanation
Indices: 110756564--110756669 Score: 149
Period size: 49 Copynumber: 2.2 Consensus size: 48
110756554 TATGGTCTTA
*
110756564 CACATATTCATATATCAATGCCATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCAATGCCATAGCCCAGCTATGGTCTTACACG-AAT
** * *
110756614 CACATATCACATATCGGTGCCATAGCCCGGTTATGGTCTTACACGAAT
1 CACATATCACATATCAATGCCATAGCCCAGCTATGGTCTTACACGAAT
110756662 CACATATC
1 CACATATC
110756670 TCACTGATGC
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
48 11 0.22
49 34 0.67
50 6 0.12
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.28
Consensus pattern (48 bp):
CACATATCACATATCAATGCCATAGCCCAGCTATGGTCTTACACGAAT
Found at i:110756804 original size:31 final size:31
Alignment explanation
Indices: 110756769--110756886 Score: 166
Period size: 31 Copynumber: 3.8 Consensus size: 31
110756759 CTTGTCACTT
* *
110756769 GTAGCCGAAGCTACCACTATTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
110756800 GTAGCCGGTA-CTACTACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
110756831 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
110756862 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
110756887 TGTCATTTGT
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
30 2 0.03
31 73 0.95
32 2 0.03
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:110756968 original size:50 final size:50
Alignment explanation
Indices: 110756862--110757038 Score: 275
Period size: 50 Copynumber: 3.5 Consensus size: 50
110756852 CACTGATCAG
* * * *
110756862 GTAGCTGAAGCTACCACTTTTCACTTGTCA-TTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
110756913 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
*
110756963 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGACAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
*
110757013 GTAGCCGAATCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
110757039 GTTGCCATGG
Statistics
Matches: 119, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
50 93 0.78
51 26 0.22
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
Found at i:110765581 original size:17 final size:17
Alignment explanation
Indices: 110765559--110765593 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
110765549 GATACATGCT
110765559 TGTTGGATACTAATACC
1 TGTTGGATACTAATACC
110765576 TGTTGGATACTAATACC
1 TGTTGGATACTAATACC
110765593 T
1 T
110765594 ATCTTTGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (17 bp):
TGTTGGATACTAATACC
Found at i:110768287 original size:9 final size:9
Alignment explanation
Indices: 110768275--110768333 Score: 75
Period size: 9 Copynumber: 6.6 Consensus size: 9
110768265 AAAAGTATAA
110768275 AATTAACCG
1 AATTAACCG
*
110768284 AATTAATCG
1 AATTAACCG
*
110768293 AATTCACCG
1 AATTAACCG
*
110768302 AATT-ACTCA
1 AATTAAC-CG
110768311 AATTAACCG
1 AATTAACCG
110768320 AATTAACCG
1 AATTAACCG
110768329 AATTA
1 AATTA
110768334 TTTGTATAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
8 2 0.05
9 39 0.91
10 2 0.05
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:110769158 original size:11 final size:11
Alignment explanation
Indices: 110769126--110769165 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
110769116 AATAGAAGTT
110769126 GAGAGAATTGA
1 GAGAGAATTGA
* * *
110769137 AAGATAGTTGA
1 GAGAGAATTGA
110769148 GAGAGAATTGA
1 GAGAGAATTGA
110769159 GAGAGAA
1 GAGAGAA
110769166 CTAAAAGAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.35, T:0.17
Consensus pattern (11 bp):
GAGAGAATTGA
Found at i:110775611 original size:2 final size:2
Alignment explanation
Indices: 110775604--110775646 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
110775594 ATATTTTTAA
110775604 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
110775646 A
1 A
110775647 AAATAATATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:110781305 original size:13 final size:12
Alignment explanation
Indices: 110781268--110781316 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 12
110781258 GAAAATTCTA
110781268 TTTTCTTTCTTTC
1 TTTT-TTTCTTTC
*
110781281 TTTTTTCACTTTC
1 TTTTTT-TCTTTC
*
110781294 TTTTCTTTCTTTA
1 TTTT-TTTCTTTC
110781307 TTTTTTTCTT
1 TTTTTTTCTT
110781317 CAGATCAAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 8 0.26
13 21 0.68
14 2 0.06
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTTTCTTTC
Found at i:110783662 original size:2 final size:2
Alignment explanation
Indices: 110783649--110783683 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
110783639 CATGTTCTTG
*
110783649 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
110783684 AACTTCTCTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:110790012 original size:49 final size:49
Alignment explanation
Indices: 110789940--110790139 Score: 346
Period size: 49 Copynumber: 4.1 Consensus size: 49
110789930 ACATAATAAT
110789940 ATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATAC
1 ATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATAC
*
110789989 ATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAACTGTATAC
1 ATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATAC
* *
110790038 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATAT
1 ATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATAC
* * *
110790087 ATATGTGATAAGGCCTAATGGCCAACGTGATGAATGTGAAAGTGTATAT
1 ATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATAC
110790136 ATAT
1 ATAT
110790140 ATGTGGTAAA
Statistics
Matches: 144, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 144 1.00
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.28
Consensus pattern (49 bp):
ATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATAC
Found at i:110790263 original size:37 final size:36
Alignment explanation
Indices: 110790213--110790294 Score: 137
Period size: 37 Copynumber: 2.2 Consensus size: 36
110790203 AGAAATATGT
110790213 TCCGGGTGAGACCCGATGACTACGTGTGGAGATCATG
1 TCCGGGT-AGACCCGATGACTACGTGTGGAGATCATG
*
110790250 TCCGGGTACGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTA-GACCCGATGACTACGTGTGGAGATCATG
110790287 TCCGGGTA
1 TCCGGGTA
110790295 AGACTTCGTA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
36 1 0.02
37 42 0.98
ACGTcount: A:0.21, C:0.22, G:0.34, T:0.23
Consensus pattern (36 bp):
TCCGGGTAGACCCGATGACTACGTGTGGAGATCATG
Found at i:110791799 original size:21 final size:21
Alignment explanation
Indices: 110791724--110791789 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 21
110791714 GTCTTGAATT
110791724 TGTTAGATATTGAATTTATTA
1 TGTTAGATATTGAATTTATTA
* *
110791745 TGTTTTAAGCTTGTTGAATTTATTA
1 TG--TT-AG-ATATTGAATTTATTA
110791770 TGTTAGATATTGAATTTATT
1 TGTTAGATATTGAATTTATT
110791790 TGGTTGGATA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 14 0.38
22 2 0.05
23 4 0.11
24 2 0.05
25 15 0.41
ACGTcount: A:0.29, C:0.02, G:0.15, T:0.55
Consensus pattern (21 bp):
TGTTAGATATTGAATTTATTA
Found at i:110793118 original size:28 final size:28
Alignment explanation
Indices: 110793050--110793121 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
110793040 AAATCATTGC
*
110793050 AATATATGTAAAAACAATTTAAAGTATA
1 AATATATGTAAAAACAATTTAAAATATA
* *
110793078 AGTTTAT-TAAAAAACAATTTAAAATATA
1 AATATATGT-AAAAACAATTTAAAATATA
*
110793106 AATACATGTAAAAACA
1 AATATATGTAAAAACA
110793122 GCTTTTCCGA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
27 1 0.03
28 34 0.94
29 1 0.03
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.31
Consensus pattern (28 bp):
AATATATGTAAAAACAATTTAAAATATA
Found at i:110793253 original size:20 final size:19
Alignment explanation
Indices: 110793193--110793257 Score: 112
Period size: 19 Copynumber: 3.4 Consensus size: 19
110793183 CATCCAAACA
*
110793193 CCAGAAAAGTAAATCATTT
1 CCAGAAAACTAAATCATTT
110793212 CCAGAAAACTAAATCATTT
1 CCAGAAAACTAAATCATTT
110793231 CCAGAAAACTAAATCATTTT
1 CCAGAAAACTAAATCA-TTT
110793251 CCAGAAA
1 CCAGAAA
110793258 TCATTTTCTG
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
19 34 0.77
20 10 0.23
ACGTcount: A:0.48, C:0.20, G:0.08, T:0.25
Consensus pattern (19 bp):
CCAGAAAACTAAATCATTT
Found at i:110795473 original size:3 final size:3
Alignment explanation
Indices: 110795459--110795540 Score: 137
Period size: 3 Copynumber: 26.3 Consensus size: 3
110795449 AAACAAATAC
110795459 AAT AAT ATAT AAT AAT AAT AAT AAAT AAT AAAT AAT AAT AAT AAT AAT
1 AAT AAT A-AT AAT AAT AAT AAT -AAT AAT -AAT AAT AAT AAT AAT AAT
110795507 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
110795541 TAGTAACATA
Statistics
Matches: 76, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
3 67 0.88
4 9 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:110795844 original size:7 final size:7
Alignment explanation
Indices: 110795832--110795980 Score: 50
Period size: 7 Copynumber: 21.4 Consensus size: 7
110795822 TGAATTTTAA
110795832 AATATAT
1 AATATAT
110795839 AATATAT
1 AATATAT
110795846 GATAGTATAT
1 -A-A-TATAT
*
110795856 AA-AAAT
1 AATATAT
110795862 AATA-AT
1 AATATAT
*
110795868 AAATGAAAT
1 -AAT-ATAT
*
110795877 AATTTAT
1 AATATAT
*
110795884 AGTATAT
1 AATATAT
110795891 AATATA-
1 AATATAT
*
110795897 AA-ATGT
1 AATATAT
* *
110795903 AAGTTTTT
1 AA-TATAT
110795911 AA-A-AT
1 AATATAT
*
110795916 AATGTAT
1 AATATAT
110795923 AATATA-
1 AATATAT
*
110795929 AATAAAT
1 AATATAT
110795936 AAATATAT
1 -AATATAT
110795944 AAGATATAT
1 -A-ATATAT
110795953 AAGT-TA-
1 AA-TATAT
110795959 AA-ATAT
1 AATATAT
110795965 AATATAT
1 AATATAT
110795972 AATA-AT
1 AATATAT
110795978 AAT
1 AAT
110795981 TTACAAATTT
Statistics
Matches: 108, Mismatches: 15, Indels: 39
0.67 0.09 0.24
Matches are distributed among these distances:
5 7 0.06
6 25 0.23
7 41 0.38
8 20 0.19
9 10 0.09
10 5 0.05
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (7 bp):
AATATAT
Found at i:110795944 original size:21 final size:21
Alignment explanation
Indices: 110795912--110795976 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
110795902 TAAGTTTTTA
*
110795912 AAAT-AATGTATAATATAAAT
1 AAATAAATATATAATATAAAT
* *
110795932 AAATAAATATATAAGATATAT
1 AAATAAATATATAATATAAAT
*
110795953 AAGTTAAA-ATATAATATATAAT
1 AA-ATAAATATATAATATA-AAT
110795975 AA
1 AA
110795977 TAATTTACAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 4 0.11
21 24 0.67
22 8 0.22
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.34
Consensus pattern (21 bp):
AAATAAATATATAATATAAAT
Found at i:110796015 original size:12 final size:13
Alignment explanation
Indices: 110795996--110796026 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
110795986 AATTTTGAAA
110795996 ATATAAATAATAT
1 ATATAAATAATAT
110796009 A-ATAAATAATAT
1 ATATAAATAATAT
110796021 ATATAA
1 ATATAA
110796027 TAAATTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
ATATAAATAATAT
Found at i:110796024 original size:16 final size:15
Alignment explanation
Indices: 110796001--110796031 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
110795991 TGAAAATATA
110796001 AATAATATAATAAAT
1 AATAATATAATAAAT
110796016 AATATATATAATAAAT
1 AATA-ATATAATAAAT
110796032 TAAAAATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAATATAATAAAT
Found at i:110796368 original size:17 final size:18
Alignment explanation
Indices: 110796336--110796424 Score: 130
Period size: 17 Copynumber: 4.9 Consensus size: 18
110796326 AATCATATCT
110796336 TCTAAGATTGTATATCATA
1 TCTAAGATTG-ATATCATA
110796355 TCTAAGATTG-TATCATA
1 TCTAAGATTGATATCATA
110796372 TCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATA
110796390 TCTAAGATTG-TATCATA
1 TCTAAGATTGATATCATA
110796407 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
110796425 TGAAGATTAT
Statistics
Matches: 65, Mismatches: 0, Indels: 10
0.87 0.00 0.13
Matches are distributed among these distances:
17 33 0.51
18 16 0.25
19 16 0.25
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.39
Consensus pattern (18 bp):
TCTAAGATTGATATCATA
Found at i:110796372 original size:22 final size:19
Alignment explanation
Indices: 110796327--110796409 Score: 56
Period size: 17 Copynumber: 4.5 Consensus size: 19
110796317 AGATTACAAA
110796327 ATCATATCTTCTAAGATTG
1 ATCATATCTTCTAAGATTG
110796346 -T-ATATCATATCTAAGATTG
1 ATCATATC-T-TCTAAGATTG
110796365 TATCATA---TCTAAGATTG
1 -ATCATATCTTCTAAGATTG
110796382 --CA-ATCATATCTAAGATTG
1 ATCATATC-T-TCTAAGATTG
110796400 TATCATATCT
1 -ATCATATCT
110796410 AAGATTGCAT
Statistics
Matches: 50, Mismatches: 0, Indels: 26
0.66 0.00 0.34
Matches are distributed among these distances:
13 1 0.02
14 2 0.04
17 15 0.30
18 12 0.24
19 10 0.20
21 4 0.08
22 6 0.12
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (19 bp):
ATCATATCTTCTAAGATTG
Found at i:110796393 original size:35 final size:36
Alignment explanation
Indices: 110796336--110796424 Score: 162
Period size: 35 Copynumber: 2.5 Consensus size: 36
110796326 AATCATATCT
*
110796336 TCTAAGATTGTATATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGTATCATA
110796372 TCTAAGATTGCA-ATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGTATCATA
110796407 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
110796425 TGAAGATTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
35 35 0.69
36 16 0.31
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.39
Consensus pattern (36 bp):
TCTAAGATTGCATATCATATCTAAGATTGTATCATA
Found at i:110797010 original size:83 final size:83
Alignment explanation
Indices: 110796820--110797316 Score: 877
Period size: 83 Copynumber: 6.0 Consensus size: 83
110796810 TGTCAAATCA
* * * *
110796820 TCTGTTTGAGAACATTTGAGAATCATATCTACAAGGTCCTCGACTTGTTCCTTGTAAGCACAAGG
1 TCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGG
110796885 ATGCCTAAACCATCTTGAG
66 ATGCC-AAACCATCTTGAG
* * *
110796904 TCTGTTTGAGAACATTTGAGAGTCATGTCTGTAAGGTCCTCGATTTGTTCCTTGTAAGCACAAGG
1 TCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGG
110796969 ATGCCAAACCATCTTGAG
66 ATGCCAAACCATCTTGAG
*
110796987 TCTGTTTGAGAACATTTGAGAGTCTTATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGG
1 TCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGG
*
110797052 ATGCCAAAGCATCTTGAG
66 ATGCCAAACCATCTTGAG
*
110797070 TCTGTTTAAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGG
1 TCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGG
*
110797135 ATGCCAAAGCATCTTGAG
66 ATGCCAAACCATCTTGAG
110797153 TCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGG
1 TCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGG
110797218 ATGCCAAACCATCTTGAG
66 ATGCCAAACCATCTTGAG
*
110797236 TCTGTTTGAGAACATTTGAGAGTCATATCTACAATGTCCTCGATTTGTTCCTTGTAAGCACAAGG
1 TCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGG
110797301 ATGCCAAACCATCTTG
66 ATGCCAAACCATCTTG
110797317 GATCTGCTTC
Statistics
Matches: 398, Mismatches: 15, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
83 333 0.84
84 65 0.16
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.33
Consensus pattern (83 bp):
TCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGG
ATGCCAAACCATCTTGAG
Found at i:110797651 original size:235 final size:237
Alignment explanation
Indices: 110797252--110797830 Score: 955
Period size: 235 Copynumber: 2.4 Consensus size: 237
110797242 TGAGAACATT
* * * * *
110797252 TGAGAGTCATATCTACAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
1 TGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTG
* *
110797317 GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATAATTGAGAATGTCTGAGAGTCAAA
66 GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATAATTGAGAACGTCTAAGAGTCAAA
* *
110797382 TCTGTTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACC-AA-ATCTTGGATCTGCTTCAG
131 TCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAACATCTTGGATCTGCTTCAG
* * * *
110797445 TATAAACATTTGAAGGTTAGATCTGTTATATTTGAGAATGGC
196 TATAAACATCTGAAAGTTAGATCTGCTATATTTGAGAACGGC
*
110797487 TGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATTCCAAATCATCTTG
1 TGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTG
* *
110797552 GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATATTTGAGAACGTCTAAGAGTCAAA
66 GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATAATTGAGAACGTCTAAGAGTCAAA
*
110797617 TCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTCA
131 TCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAA-CATCTTGGATCTGCTTCA
* *
110797682 GTATAAACATCTGAAAGTTAGATCTGCTATCTTTGAGAACGTC
195 GTATAAACATCTGAAAGTTAGATCTGCTATATTTGAGAACGGC
*
110797725 TGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTG
1 TGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTG
110797790 GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTAT
66 GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTAT
110797831 CTTCGATCTG
Statistics
Matches: 319, Mismatches: 22, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
235 160 0.50
236 2 0.01
238 157 0.49
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.34
Consensus pattern (237 bp):
TGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTG
GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATAATTGAGAACGTCTAAGAGTCAAA
TCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAACATCTTGGATCTGCTTCAG
TATAAACATCTGAAAGTTAGATCTGCTATATTTGAGAACGGC
Found at i:110797833 original size:119 final size:119
Alignment explanation
Indices: 110797240--110797830 Score: 954
Period size: 119 Copynumber: 5.0 Consensus size: 119
110797230 CTTGAGTCTG
* * * * * * *
110797240 TTTGAGAACATTTGAGAGTCATATCTACAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
*
110797305 CAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* * * * *
110797359 ATTGAGAATGTCTGAGAGTCAAATCTGTTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
* *
110797424 C-AA--ATCTTGGATCTGCTTCAGTATAAACATTTGAAGGTTAGATCTGTTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* * * *
110797475 TTTGAGAATGGCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATTC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
*
110797540 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
*
110797594 TTTGAGAACGTCTAAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
* *
110797659 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGTTAGATCTGCTATC
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
110797713 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
110797778 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTAT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTAT
110797831 CTTCGATCTG
Statistics
Matches: 436, Mismatches: 33, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
116 106 0.24
117 2 0.00
118 2 0.00
119 326 0.75
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
Found at i:110797870 original size:44 final size:44
Alignment explanation
Indices: 110797822--110798001 Score: 188
Period size: 44 Copynumber: 4.1 Consensus size: 44
110797812 TGAAGGTTAG
110797822 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
*
110797866 ATCTGCTATCTTC-AACTTGTTCCCTATAAACACAGGGATGCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAACACAGGGATGCCAA
** * * * * * * *
110797908 ATGCTGAAATCTTCAATCTGCTTCGC-AGAGAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTCCCTATA-AACACAGGGATGCCAA
* *
110797954 ATCTACTATCTTCGATCTGTTCCCTATAAACATAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
110797998 ATCT
1 ATCT
110798002 TGTTTCTTTG
Statistics
Matches: 108, Mismatches: 20, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
42 2 0.02
43 15 0.14
44 74 0.69
45 15 0.14
46 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
Found at i:110798904 original size:21 final size:18
Alignment explanation
Indices: 110798880--110798923 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 18
110798870 CCTCTCCATC
110798880 TTTTTCTTTTTTCTCTTTATT
1 TTTTTCTTTTTT-T-TTT-TT
110798901 TTTTTCTTTTTTTTTTTT
1 TTTTTCTTTTTTTTTTTT
110798919 TTTTT
1 TTTTT
110798924 AAATAGAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.30
19 3 0.13
20 1 0.04
21 12 0.52
ACGTcount: A:0.02, C:0.09, G:0.00, T:0.89
Consensus pattern (18 bp):
TTTTTCTTTTTTTTTTTT
Found at i:110798905 original size:14 final size:12
Alignment explanation
Indices: 110798878--110798923 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 12
110798868 GGCCTCTCCA
110798878 TCTTTTTCTTTTT
1 TCTTTTT-TTTTT
110798891 TCTCTTTATTTTTT
1 TCT-TTT-TTTTTT
110798905 TCTTTTTTTTTT
1 TCTTTTTTTTTT
110798917 T-TTTTTT
1 TCTTTTTT
110798924 AAATAGAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
11 6 0.19
12 7 0.23
13 6 0.19
14 11 0.35
15 1 0.03
ACGTcount: A:0.02, C:0.11, G:0.00, T:0.87
Consensus pattern (12 bp):
TCTTTTTTTTTT
Found at i:110798908 original size:12 final size:11
Alignment explanation
Indices: 110798886--110798923 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 11
110798876 CATCTTTTTC
*
110798886 TTTTTTCTCTT
1 TTTTTTTTCTT
110798897 TATTTTTTTCTT
1 T-TTTTTTTCTT
110798909 TTTTTTTT-TT
1 TTTTTTTTCTT
110798919 TTTTT
1 TTTTT
110798924 AAATAGAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
10 7 0.28
11 8 0.32
12 10 0.40
ACGTcount: A:0.03, C:0.08, G:0.00, T:0.89
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:110804171 original size:2 final size:2
Alignment explanation
Indices: 110804164--110804197 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
110804154 ACATTAATTA
110804164 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
110804198 GTAACATATG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:110804600 original size:21 final size:21
Alignment explanation
Indices: 110804568--110804632 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
110804558 TAAGTTTTTA
*
110804568 AAAT-AATGTATAATATAAAT
1 AAATAAATATATAATATAAAT
* *
110804588 AAATAAATATATAAGATATAT
1 AAATAAATATATAATATAAAT
*
110804609 AAGTTAAA-ATATAATATATAAT
1 AA-ATAAATATATAATATA-AAT
110804631 AA
1 AA
110804633 TAATTTACAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 4 0.11
21 24 0.67
22 8 0.22
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.34
Consensus pattern (21 bp):
AAATAAATATATAATATAAAT
Found at i:110804601 original size:28 final size:29
Alignment explanation
Indices: 110804570--110804630 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 29
110804560 AGTTTTTAAA
110804570 ATAATGTATAATATAA-AT-AAATA-AATAT
1 ATAATG-AT-ATATAAGATAAAATATAATAT
*
110804598 ATAA-GATATATAAGTTAAAATATAATAT
1 ATAATGATATATAAGATAAAATATAATAT
110804626 ATAAT
1 ATAAT
110804631 AATAATTTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
25 6 0.21
26 3 0.11
27 6 0.21
28 13 0.46
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (29 bp):
ATAATGATATATAAGATAAAATATAATAT
Found at i:110804671 original size:12 final size:13
Alignment explanation
Indices: 110804652--110804682 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
110804642 AATTTTGAAA
110804652 ATATAAATAATAT
1 ATATAAATAATAT
110804665 A-ATAAATAATAT
1 ATATAAATAATAT
110804677 ATATAA
1 ATATAA
110804683 TAAATTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
ATATAAATAATAT
Found at i:110804680 original size:16 final size:15
Alignment explanation
Indices: 110804657--110804687 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
110804647 TGAAAATATA
110804657 AATAATATAATAAAT
1 AATAATATAATAAAT
110804672 AATATATATAATAAAT
1 AATA-ATATAATAAAT
110804688 TAAAAATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAATATAATAAAT
Found at i:110804990 original size:22 final size:20
Alignment explanation
Indices: 110804955--110805036 Score: 62
Period size: 22 Copynumber: 4.0 Consensus size: 20
110804945 AAAGGATATC
* *
110804955 TACAAATTAAATCTCCAAGAT
1 TACAAATCATATCT-CAAGAT
110804976 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TC-AAGAT
** *
110804999 TGTATATCATATCT-AAGAT
1 TACAAATCATATCTCAAGAT
110805018 TAC-AATCATATCT-AAGAT
1 TACAAATCATATCTCAAGAT
110805036 T
1 T
110805037 GTATCATATC
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
18 15 0.30
19 6 0.12
21 4 0.08
22 18 0.36
23 7 0.14
ACGTcount: A:0.43, C:0.16, G:0.06, T:0.35
Consensus pattern (20 bp):
TACAAATCATATCTCAAGAT
Found at i:110805044 original size:17 final size:17
Alignment explanation
Indices: 110804991--110805089 Score: 126
Period size: 17 Copynumber: 5.6 Consensus size: 17
110804981 AATCATATCT
110804991 TCTAAGATTGTATATCATA
1 TCTAAGATTG--TATCATA
**
110805010 TCTAAGATTACAATCATA
1 TCTAAGATT-GTATCATA
110805028 TCTAAGATTGTATCATA
1 TCTAAGATTGTATCATA
* *
110805045 TCTAATATTGCAATCATA
1 TCTAAGATTG-TATCATA
110805063 TCTAAGATTGTATCATA
1 TCTAAGATTGTATCATA
110805080 TCTAAGATTG
1 TCTAAGATTG
110805090 CATATCATTG
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
17 31 0.44
18 30 0.43
19 9 0.13
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.39
Consensus pattern (17 bp):
TCTAAGATTGTATCATA
Found at i:110805049 original size:35 final size:35
Alignment explanation
Indices: 110804991--110805097 Score: 169
Period size: 35 Copynumber: 3.0 Consensus size: 35
110804981 AATCATATCT
*
110804991 TCTAAGATTGTATATCATATCTAAGATTACAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
*
110805028 TCTAAGATTGTATCATATCTAATATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
110805063 TCTAAGATTGTATCATATCTAAGATTGCATATCAT
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCAT
110805098 TGAAGATTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
35 51 0.77
36 5 0.08
37 10 0.15
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.39
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:110806429 original size:39 final size:39
Alignment explanation
Indices: 110806203--110806418 Score: 351
Period size: 39 Copynumber: 5.5 Consensus size: 39
110806193 ACAAAGCATG
110806203 CGGGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGAC-TT-AGCCCGGATATAATACCAGCACGAATGCCTT
*
110806244 CGGGACTTAGCCCGGATATAATGCCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
* **
110806283 CGGGACTTAGCCCGAATATAGCACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
110806322 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
* *
110806361 CAGGACTTAGCCCGAATATAATACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
*
110806400 TGGGACTTAGCCCGGATAT
1 CGGGACTTAGCCCGGATAT
110806419 TTTTCCAGCA
Statistics
Matches: 162, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 154 0.95
40 2 0.01
41 6 0.04
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
Found at i:110806454 original size:39 final size:39
Alignment explanation
Indices: 110806411--110806542 Score: 212
Period size: 39 Copynumber: 3.4 Consensus size: 39
110806401 GGGACTTAGC
* * *
110806411 CCGGATATTTTTCCAGCACT-TAGCCTGCGGACTTTAAGT
1 CCGGATATATTTCCAGCA-TAAAGCCTGCGGACTTCAAGT
110806450 CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
1 CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
110806489 CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
1 CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
*
110806528 CCGGATATTTTTCCA
1 CCGGATATATTTCCA
110806543 ATACCATGCA
Statistics
Matches: 88, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
38 1 0.01
39 87 0.99
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.30
Consensus pattern (39 bp):
CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
Found at i:110806458 original size:78 final size:80
Alignment explanation
Indices: 110806205--110806535 Score: 340
Period size: 78 Copynumber: 4.2 Consensus size: 80
110806195 AAAGCATGCG
*
110806205 GGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAATGCCA
1 GGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAATTCCA
* *
110806270 GCACGAATGCCTTCG
66 GCACGAATGCCTGCA
* ** *
110806285 GGAC-TT-AGCCCGAATATAGCACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAATACCA
1 GGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAATTCCA
*
110806348 GCACGAATGCCTTCA
66 GCACGAATGCCTGCA
* * **
110806363 GGAC-TT-AGCCCGAATATAATACCAGCACGAATGCCTTTGGGACTTAGCCCGGATATTTTTCCA
1 GGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAATTCCA
**
110806426 GCACTTA-GCCTGC-
66 GCACGAATGCCTGCA
* * * * * * * *
110806439 GGACTTTAAGTCCGGATATATTTCCAGCA-TAAAGCCTGC-GGACTTCAAGTCCGGATATATTTC
1 GGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTT--AGCCCGGATATAATTC
* *
110806502 CAGCA-TAAAGCCTGC-
64 CAGCACGAATGCCTGCA
* *
110806517 GGACTTCAAGTCCGGATAT
1 GGACTTTAAGCCCGGATAT
110806536 TTTTCCAATA
Statistics
Matches: 220, Mismatches: 26, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
76 10 0.05
77 15 0.07
78 189 0.86
79 2 0.01
80 4 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
GGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAATTCCA
GCACGAATGCCTGCA
Found at i:110806506 original size:117 final size:119
Alignment explanation
Indices: 110806201--110806467 Score: 371
Period size: 117 Copynumber: 2.3 Consensus size: 119
110806191 CCACAAAGCA
*
110806201 TGCGGGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAAT
1 TGCGGGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAAT
*
110806266 GCCAGCACGAATGCCTTCGGGACTTAGCCCGAATATAGCACCAGCACGAATGCC
66 ACCAGCACGAATGCCTTCGGGACTTAGCCCGAATATAGCACCAGCACGAATGCC
* *
110806320 TTCGGGAC-TT-AGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTTAGCCCGAATATAAT
1 TGCGGGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAAT
* * **** **
110806383 ACCAGCACGAATGCCTTTGGGACTTAGCCCGGATATTTTTCCAGCACTTA-GCC
66 ACCAGCACGAATGCCTTCGGGACTTAGCCCGAATATAGCACCAGCACGAATGCC
* * *
110806436 TGC-GGACTTTAAGTCCGGATATATTTCCAGCA
1 TGCGGGACTTTAAGCCCGGATATAATACCAGCA
110806468 TAAAGCCTGC
Statistics
Matches: 130, Mismatches: 16, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
115 4 0.03
116 7 0.05
117 110 0.85
118 2 0.02
119 7 0.05
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.23
Consensus pattern (119 bp):
TGCGGGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAAT
ACCAGCACGAATGCCTTCGGGACTTAGCCCGAATATAGCACCAGCACGAATGCC
Found at i:110807212 original size:2 final size:2
Alignment explanation
Indices: 110807205--110807241 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
110807195 TTAAGATACC
110807205 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
110807242 GTGCATAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:110809956 original size:18 final size:19
Alignment explanation
Indices: 110809915--110809958 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
110809905 TTAATATTAG
*
110809915 ATTTA-TTATTTTTATTTT
1 ATTTATTTATTTTAATTTT
*
110809933 AGTTATTTATTTTAATTTT
1 ATTTATTTATTTTAATTTT
110809952 -TTTATTT
1 ATTTATTT
110809959 GACTTGGATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (19 bp):
ATTTATTTATTTTAATTTT
Found at i:110810261 original size:18 final size:18
Alignment explanation
Indices: 110810234--110810280 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
110810224 TTCTATTTTC
110810234 TTTC-TTTCTTT-TTTCAT
1 TTTCTTTTCTTTCTTT-AT
110810251 TTTCTTTTCTTTCTTTAT
1 TTTCTTTTCTTTCTTTAT
*
110810269 TTTTTTTTCTTT
1 TTTCTTTTCTTT
110810281 AGATCAAGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 4 0.15
18 20 0.74
19 3 0.11
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTCTTTTCTTTCTTTAT
Found at i:110810262 original size:22 final size:23
Alignment explanation
Indices: 110810228--110810280 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 23
110810218 GGAAAATTCT
110810228 ATTTTC-TTTCTTTCTTT-TTTC
1 ATTTTCTTTTCTTTCTTTATTTC
*
110810249 ATTTTCTTTTCTTTCTTTATTTT
1 ATTTTCTTTTCTTTCTTTATTTC
*
110810272 TTTTTCTTT
1 ATTTTCTTT
110810281 AGATCAAGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 6 0.21
22 11 0.39
23 11 0.39
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (23 bp):
ATTTTCTTTTCTTTCTTTATTTC
Found at i:110815117 original size:68 final size:68
Alignment explanation
Indices: 110814958--110815117 Score: 266
Period size: 68 Copynumber: 2.4 Consensus size: 68
110814948 TTCTTTTTTA
* * * *
110814958 AAAATTAATTAAATTAGGGTTTAAGAGTTTTAAATAAATTAATTAAATTTGGGTTTAATGTTTTT
1 AAAATTAATTAAATTAGGGTTTAGGAGTTTTAAATAAATTAAATAAATTTGGGTTCAATATTTTT
110815023 AAG
66 AAG
*
110815026 AAAATTAATTAAATTAGGGTTTAGGGGTTTTAAATAAATTAAATAAATTTGGGTTCAATATTTTT
1 AAAATTAATTAAATTAGGGTTTAGGAGTTTTAAATAAATTAAATAAATTTGGGTTCAATATTTTT
110815091 AAG
66 AAG
*
110815094 AAAATTAATTAAATTTGGGTTTAG
1 AAAATTAATTAAATTAGGGTTTAG
110815118 TCTTTTTAAA
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 86 1.00
ACGTcount: A:0.41, C:0.01, G:0.16, T:0.42
Consensus pattern (68 bp):
AAAATTAATTAAATTAGGGTTTAGGAGTTTTAAATAAATTAAATAAATTTGGGTTCAATATTTTT
AAG
Found at i:110815124 original size:34 final size:33
Alignment explanation
Indices: 110814951--110815131 Score: 193
Period size: 34 Copynumber: 5.4 Consensus size: 33
110814941 TTTAGTGTTC
* *
110814951 TTTTTTAAAAATTAATTAAATTAGGGTTTAAG-A
1 TTTTTAAAAAATTAATTAAATTTGGGTTT-AGTA
* * *
110814984 GTTTTAAATAAATTAATTAAATTTGGGTTTAATG
1 TTTTTAAA-AAATTAATTAAATTTGGGTTTAGTA
* **
110815018 TTTTTAAGAAAATTAATTAAATTAGGGTTTAGGG
1 TTTTTAA-AAAATTAATTAAATTTGGGTTTAGTA
* * * *
110815052 GTTTTAAATAAATTAAATAAATTTGGGTTCAATA
1 TTTTTAAA-AAATTAATTAAATTTGGGTTTAGTA
*
110815086 TTTTTAAGAAAATTAATTAAATTTGGGTTTAGTC
1 TTTTTAA-AAAATTAATTAAATTTGGGTTTAGTA
110815120 TTTTTAAAAAAT
1 TTTTTAAAAAAT
110815132 AATATTGTGT
Statistics
Matches: 122, Mismatches: 21, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
33 13 0.11
34 107 0.88
35 2 0.02
ACGTcount: A:0.40, C:0.01, G:0.14, T:0.45
Consensus pattern (33 bp):
TTTTTAAAAAATTAATTAAATTTGGGTTTAGTA
Found at i:110820722 original size:24 final size:23
Alignment explanation
Indices: 110820666--110820722 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 23
110820656 AAGAACTTCT
110820666 ATTTTATTAAAAATATAAAAATA
1 ATTTTATTAAAAATATAAAAATA
110820689 ATTTACTATT-AAAATATTAAAAATAA
1 ATTT--TATTAAAAATA-TAAAAAT-A
110820715 ATTTTATT
1 ATTTTATT
110820723 TTATTAAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
23 4 0.13
24 10 0.33
25 11 0.37
26 5 0.17
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTTTATTAAAAATATAAAAATA
Found at i:110822821 original size:21 final size:21
Alignment explanation
Indices: 110822797--110822840 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
110822787 AAATAATTAA
**
110822797 TTAAAGAGAGCTTTGAGAAAT
1 TTAAAGAGAAATTTGAGAAAT
* *
110822818 TTAAGGAGAAATTTGAGAGAT
1 TTAAAGAGAAATTTGAGAAAT
110822839 TT
1 TT
110822841 TTTGCTAAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.02, G:0.25, T:0.32
Consensus pattern (21 bp):
TTAAAGAGAAATTTGAGAAAT
Found at i:110831970 original size:21 final size:20
Alignment explanation
Indices: 110831946--110831985 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
110831936 CATGTATTTT
110831946 AATGATTGATGATAGATTATG
1 AATGATTGATGATAG-TTATG
*
110831967 AATGTTTGATGATAGTTAT
1 AATGATTGATGATAGTTAT
110831986 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:110831993 original size:20 final size:21
Alignment explanation
Indices: 110831951--110831993 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
110831941 ATTTTAATGA
*
110831951 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
110831972 TTGATGATAG-TTAT-ACAAGT
1 TTGATGATAGATTATGA-AAGT
110831992 TT
1 TT
110831994 TGTTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:110844731 original size:13 final size:13
Alignment explanation
Indices: 110844713--110844812 Score: 98
Period size: 13 Copynumber: 8.6 Consensus size: 13
110844703 AAATATCTTT
110844713 ACTCCACTAAACC
1 ACTCCACTAAACC
110844726 ACT-C-C--AACC
1 ACTCCACTAAACC
110844735 ACT-C-C-AA-CC
1 ACTCCACTAAACC
*
110844744 ACTTCACTAAACC
1 ACTCCACTAAACC
110844757 ACTCCACTAAACC
1 ACTCCACTAAACC
*
110844770 ACTACACTAAACC
1 ACTCCACTAAACC
110844783 ACTCCACTAAACC
1 ACTCCACTAAACC
110844796 AC-CC-C--AACC
1 ACTCCACTAAACC
110844805 ACTCCACT
1 ACTCCACT
110844813 TGCCTACAAA
Statistics
Matches: 76, Mismatches: 3, Indels: 17
0.79 0.03 0.18
Matches are distributed among these distances:
9 20 0.26
10 4 0.05
11 4 0.05
12 5 0.07
13 43 0.57
ACGTcount: A:0.37, C:0.48, G:0.00, T:0.15
Consensus pattern (13 bp):
ACTCCACTAAACC
Found at i:110844736 original size:9 final size:9
Alignment explanation
Indices: 110844722--110844746 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
110844712 TACTCCACTA
110844722 AACCACTCC
1 AACCACTCC
110844731 AACCACTCC
1 AACCACTCC
110844740 AACCACT
1 AACCACT
110844747 TCACTAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.52, G:0.00, T:0.12
Consensus pattern (9 bp):
AACCACTCC
Found at i:110845100 original size:3 final size:3
Alignment explanation
Indices: 110845084--110845161 Score: 56
Period size: 3 Copynumber: 25.3 Consensus size: 3
110845074 TTTATTTTTT
* *
110845084 TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA TTA TT- TCTCA TGTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA T-T-A T-TA
110845131 TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
110845162 ATATGCCCTC
Statistics
Matches: 61, Mismatches: 6, Indels: 16
0.73 0.07 0.19
Matches are distributed among these distances:
2 5 0.08
3 47 0.77
4 7 0.11
5 2 0.03
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:110845163 original size:30 final size:34
Alignment explanation
Indices: 110845069--110845165 Score: 54
Period size: 30 Copynumber: 3.1 Consensus size: 34
110845059 AGCTTTGTTT
*
110845069 TATTTTTTATTTT-TT-TTATT-TTTACTATTAT-
1 TATTTATTATTTTATTATTATTATTTA-TATTATA
* * *
110845100 T-TATATTATTATTATTATTATT-TCTCAT-GTATA
1 TATTTATTATT-TTATTATTATTAT-TTATATTATA
110845133 TA-TTATTA-TTTA-TATTATTA-TTATATTATA
1 TATTTATTATTTTATTATTATTATTTATATTATA
110845163 TAT
1 TAT
110845166 GCCCTCTCCA
Statistics
Matches: 50, Mismatches: 7, Indels: 18
0.67 0.09 0.24
Matches are distributed among these distances:
29 3 0.06
30 20 0.40
31 6 0.12
32 6 0.12
33 13 0.26
34 2 0.04
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (34 bp):
TATTTATTATTTTATTATTATTATTTATATTATA
Found at i:110845242 original size:3 final size:3
Alignment explanation
Indices: 110845236--110845292 Score: 62
Period size: 3 Copynumber: 18.0 Consensus size: 3
110845226 TTTTGACTAC
*
110845236 TAT TAT TAT ATAT ATAT GTAT TAT TGT T-T GTAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT -TAT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
110845284 TAT TAT TAT
1 TAT TAT TAT
110845293 CACCCCTATT
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
2 1 0.02
3 37 0.76
4 11 0.22
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:110845554 original size:18 final size:19
Alignment explanation
Indices: 110845524--110845569 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
110845514 TGTGTATTTC
*
110845524 TATTATATACATATA-TAT
1 TATTATTTACATATAGTAT
110845542 ATATT-TTTACATATAGTAT
1 -TATTATTTACATATAGTAT
110845561 TATTATTTA
1 TATTATTTA
110845570 ATTTACTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.54
Consensus pattern (19 bp):
TATTATTTACATATAGTAT
Found at i:110845585 original size:122 final size:122
Alignment explanation
Indices: 110845366--110845586 Score: 259
Period size: 122 Copynumber: 1.8 Consensus size: 122
110845356 ATTATTTTTG
* * * * *
110845366 TTATTACTATTATTATTATATATTAGTGTATATTTTTATGTATATATATATTTATATATAGTATT
1 TTATTACTATTATTATTATATAGTAGTGTATATTTCTATGTATATACATATATATATATAGTAAT
* * * **
110845431 GTTTTTTATTACTTTAATTTAATATTTTTATTATATTTGCTTTTTGTATTTCTATAT
66 ATGTATTATTACTTTAATTTAATATTAATATTATATTTGCTTTTTGTATTTCTATAT
* * **
110845488 TTATTATTATTATTATTATATAGTAGTGTGTATTTCTAT-TATATACATATATATATATTTTTAC
1 TTATTACTATTATTATTATATAGTAGTGTATATTTCTATGTATATACATATATATATA-TAGTA-
*
110845552 ATATAGTATTATTA-TTTAATTTACT-TTAATATTAT
64 ATAT-GTATTATTACTTTAATTTAATATTAATATTAT
110845587 TCTTATTATC
Statistics
Matches: 81, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
121 16 0.20
122 46 0.57
123 12 0.15
124 7 0.09
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (122 bp):
TTATTACTATTATTATTATATAGTAGTGTATATTTCTATGTATATACATATATATATATAGTAAT
ATGTATTATTACTTTAATTTAATATTAATATTATATTTGCTTTTTGTATTTCTATAT
Found at i:110848032 original size:19 final size:19
Alignment explanation
Indices: 110848002--110848047 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
110847992 CTTCCTTTCT
110848002 TTTGCATT-CATTCCATACA
1 TTTGCATTACATTCCA-ACA
*
110848021 TTT-CATTACATTGCAACA
1 TTTGCATTACATTCCAACA
110848039 TTTGCATTA
1 TTTGCATTA
110848048 AACTTTCACT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.28, C:0.22, G:0.07, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATTCCAACA
Found at i:110851754 original size:53 final size:52
Alignment explanation
Indices: 110851651--110851754 Score: 136
Period size: 53 Copynumber: 2.0 Consensus size: 52
110851641 GTCCAAATAA
* * * * *
110851651 ATTTTCTTCTTATTGCATTGCTATCTTTGATTAAATCATTCGTTTTGAGTTG
1 ATTTCCTTCTTATTGCATTGCAATCTTTGATTAAATCATCCATTTCGAGTTG
* *
110851703 ATTTCCTTCTTATTGCATTTGCAATCTTTGATTAATTTATCCATTTCGAGTT
1 ATTTCCTTCTTATTGCA-TTGCAATCTTTGATTAAATCATCCATTTCGAGTT
110851755 ATGCTCCTAA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
52 16 0.36
53 28 0.64
ACGTcount: A:0.20, C:0.15, G:0.12, T:0.53
Consensus pattern (52 bp):
ATTTCCTTCTTATTGCATTGCAATCTTTGATTAAATCATCCATTTCGAGTTG
Found at i:110853016 original size:205 final size:195
Alignment explanation
Indices: 110852652--110853127 Score: 682
Period size: 205 Copynumber: 2.4 Consensus size: 195
110852642 ATCAGGCGGA
*
110852652 GAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
*
110852717 TTGGCATGTCTGTATTGTCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCGACGGAAGGCAGA
66 TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCGACGGAAGGCAGA
* * * *
110852782 CACATAGCAGATCCAACCTTCAGATGTTTATACTAAAGTAGATCTAAGATGGTTTGACATCCTTG
131 CACATAGCAGATCCAACCTTCAAATGTTTATACTAAAGCAGATCCAAGATGGTTTG----CC--A
110852847 TGCTTACAAG
190 T-C---CAAG
* * *
110852857 GAGCAAATCAAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTAAAGCAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
* * * * *
110852922 TTGGCATCTCTGTATTGTCAGAGAACAAATTGAAGTCTGGCATCTCCACTTCGATGGAGGGTAGA
66 TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCGACGGAAGGCAGA
* *
110852987 TACATAGCAGATCCAACCTTCAAATGTTTATACTGAAGCAGATCCAAGATGGTTTGCCATCCAAG
131 CACATAGCAGATCCAACCTTCAAATGTTTATACTAAAGCAGATCCAAGATGGTTTGCCATCCAAG
* * *
110853052 GAGCAAATCGAAGACATAGCTGATTTCGCTTTCACGTGTTTACGTTGAAGCAAATCCAAGATAAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
*
110853117 TTGGCGTCTCT
66 TTGGCATCTCT
110853128 ATAGCGGCGG
Statistics
Matches: 248, Mismatches: 23, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
195 73 0.29
198 1 0.00
199 1 0.00
201 2 0.01
205 171 0.69
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (195 bp):
GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCGACGGAAGGCAGA
CACATAGCAGATCCAACCTTCAAATGTTTATACTAAAGCAGATCCAAGATGGTTTGCCATCCAAG
Found at i:110853251 original size:88 final size:87
Alignment explanation
Indices: 110853142--110853812 Score: 587
Period size: 88 Copynumber: 7.6 Consensus size: 87
110853132 CGGCGGAGAG
* * *
110853142 CAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTATAGTGAAGCAGATAGAAGATTTCAGCAT
1 CAGATCGAAGATAGCAGATCTGACATCCCTGTGCTTATAGGGAA-CAGATCGAAGATTTCAGCAT
110853207 GGCATCCCTGTGCTTATAGGGAA
65 GGCATCCCTGTGCTTATAGGGAA
* * * * *
110853230 CAGATCAAAGATAGCAGATCTGACATTCCTGTGTTTACAGTGAAGCAGATCGAAGATTTCAGCAT
1 CAGATCGAAGATAGCAGATCTGACATCCCTGTGCTTATAGGGAA-CAGATCGAAGATTTCAGCAT
110853295 GGCATCCCTGTGCTTATAGGGAA
65 GGCATCCCTGTGCTTATAGGGAA
* * * **
110853318 CA-AGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAG-AT
1 CAGA-TCGAAGATAGCAGATCTGACATCCCTGTGCTTATAGGGAACAGATCGAAGATTTCAGCA-
* * * *
110853381 CTGACATTCCTGTGCTTACAGTGAA
64 -TGGCATCCCTGTGCTTATAGGGAA
** * * **
110853406 GCAGATCGAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGAACA-AGTTGAAGATAGCAG-
1 -CAGATCGAAGATAGCAGATC-TGACATCCCTGTGCTTATAGGGAACAGA-TCGAAGATTTCAGC
110853467 ATTTGGCATCCCTGTGCTTATAGGGAA
63 A--TGGCATCCCTGTGCTTATAGGGAA
* * * *
110853494 TAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCAT
1 CAGATCGAAGATAGCAGATCTGACATCCCTGTGCTTATAGGGAA-CAGATCGAAGATTTCAGCAT
110853559 GGCATCCCTGTGCTTATAGGGAA
65 GGCATCCCTGTGCTTATAGGGAA
* * * * * * **
110853582 CA-AGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCAAAGATAGCAG-AT
1 CAGA-TCGAAGATAGCAGATCTGACATCCCTGTGCTTATAGGGAACAGATCGAAGATTTCAGCA-
* * *
110853645 CTGACATTCCTGTGCTTA-CGGTGAA
64 -TGGCATCCCTGTGCTTATAGG-GAA
** * * **
110853670 GCAGATCGAAGATTTCAGCAT-GGA-ATCCCTGTGCTTATAGGGAACA-AGTTGAAGATAGCAG-
1 -CAGATCGAAGATAGCAG-ATCTGACATCCCTGTGCTTATAGGGAACAGA-TCGAAGATTTCAGC
*
110853731 ATTTGGCATCCCTGTGTTTATAGGGAA
63 A--TGGCATCCCTGTGCTTATAGGGAA
* * * * * * *
110853758 CA-AGTTGAAGACAGCAGATTTGGCATCCCTGTGTTTATGGGGAACAGATAGAAGA
1 CAGA-TCGAAGATAGCAGATCTGACATCCCTGTGCTTATAGGGAACAGATCGAAGA
110853813 AGCAGATCAA
Statistics
Matches: 482, Mismatches: 76, Indels: 50
0.79 0.12 0.08
Matches are distributed among these distances:
86 5 0.01
87 61 0.13
88 371 0.77
89 39 0.08
90 6 0.01
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (87 bp):
CAGATCGAAGATAGCAGATCTGACATCCCTGTGCTTATAGGGAACAGATCGAAGATTTCAGCATG
GCATCCCTGTGCTTATAGGGAA
Found at i:110853406 original size:132 final size:132
Alignment explanation
Indices: 110853206--110853790 Score: 1028
Period size: 132 Copynumber: 4.4 Consensus size: 132
110853196 GATTTCAGCA
* *
110853206 TGGCATCCCTGTGCTTATAGGGAACAGATCAAAGATAGCAGATCTGACATTCCTGTGTTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
110853271 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGA
110853336 TT
131 TT
110853338 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
110853403 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGA
110853468 TT
131 TT
*
110853470 TGGCATCCCTGTGCTTATAGGGAATAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
* *
110853535 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGA
110853600 TT
131 TT
* *
110853602 TGGCATCCCTGTGCTTATAGGGAACAGATCAAAGATAGCAGATCTGACATTCCTGTGCTTACGGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
*
110853667 GAAGCAGATCGAAGATTTCAGCATGGAATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGA
110853732 TT
131 TT
* * * * * *
110853734 TGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGACAGCAGATTTGGCATCCCTGTG
1 TGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATAGCAGATCTGACATTCCTGTG
110853791 TTTATGGGGA
Statistics
Matches: 434, Mismatches: 18, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
131 1 0.00
132 433 1.00
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (132 bp):
TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGA
TT
Found at i:110854094 original size:13 final size:13
Alignment explanation
Indices: 110854076--110854206 Score: 111
Period size: 13 Copynumber: 10.6 Consensus size: 13
110854066 AAATATCTTT
110854076 ACTCCACTAAACC
1 ACTCCACTAAACC
* **
110854089 ACTCCAACCACTCC
1 ACTCC-ACTAAACC
* *
110854103 A-ACCACTCCAACC
1 ACTCCACT-AAACC
*
110854116 ACTTCACTAAACC
1 ACTCCACTAAACC
110854129 ACTCCACTAAACC
1 ACTCCACTAAACC
110854142 ACTCCACTAAACC
1 ACTCCACTAAACC
110854155 AC-CC-C--AACC
1 ACTCCACTAAACC
110854164 AC-CCTACTAAACC
1 ACTCC-ACTAAACC
110854177 ACTCCACTAAACC
1 ACTCCACTAAACC
110854190 AC-CC-C--AACC
1 ACTCCACTAAACC
110854199 ACTCCACT
1 ACTCCACT
110854207 TGCCTACAAA
Statistics
Matches: 95, Mismatches: 12, Indels: 23
0.73 0.09 0.18
Matches are distributed among these distances:
9 14 0.15
10 2 0.02
11 4 0.04
12 6 0.06
13 57 0.60
14 12 0.13
ACGTcount: A:0.36, C:0.50, G:0.00, T:0.14
Consensus pattern (13 bp):
ACTCCACTAAACC
Found at i:110854099 original size:9 final size:9
Alignment explanation
Indices: 110854085--110854118 Score: 68
Period size: 9 Copynumber: 3.8 Consensus size: 9
110854075 TACTCCACTA
110854085 AACCACTCC
1 AACCACTCC
110854094 AACCACTCC
1 AACCACTCC
110854103 AACCACTCC
1 AACCACTCC
110854112 AACCACT
1 AACCACT
110854119 TCACTAAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.35, C:0.53, G:0.00, T:0.12
Consensus pattern (9 bp):
AACCACTCC
Found at i:110854148 original size:18 final size:18
Alignment explanation
Indices: 110854076--110854149 Score: 53
Period size: 18 Copynumber: 4.2 Consensus size: 18
110854066 AAATATCTTT
110854076 ACTCCACTAAACCACTCC
1 ACTCCACTAAACCACTCC
* *
110854094 A-ACCACTCCAACCACTCC
1 ACTCCACT-AAACCACTCC
* ** * **
110854112 A-ACCACTTCACTAAACC
1 ACTCCACTAAACCACTCC
110854129 ACTCCACTAAACCACTCC
1 ACTCCACTAAACCACTCC
110854147 ACT
1 ACT
110854150 AAACCACCCC
Statistics
Matches: 41, Mismatches: 13, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
17 11 0.27
18 30 0.73
ACGTcount: A:0.35, C:0.49, G:0.00, T:0.16
Consensus pattern (18 bp):
ACTCCACTAAACCACTCC
Found at i:110854164 original size:35 final size:35
Alignment explanation
Indices: 110854125--110854206 Score: 148
Period size: 35 Copynumber: 2.3 Consensus size: 35
110854115 CACTTCACTA
110854125 AACCACTCCACTAAACCACTCCACTAAACCACCCC
1 AACCACTCCACTAAACCACTCCACTAAACCACCCC
110854160 AACCAC-CCTACTAAACCACTCCACTAAACCACCCC
1 AACCACTCC-ACTAAACCACTCCACTAAACCACCCC
110854195 AACCACTCCACT
1 AACCACTCCACT
110854207 TGCCTACAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
34 2 0.04
35 41 0.91
36 2 0.04
ACGTcount: A:0.37, C:0.51, G:0.00, T:0.12
Consensus pattern (35 bp):
AACCACTCCACTAAACCACTCCACTAAACCACCCC
Found at i:110854481 original size:3 final size:3
Alignment explanation
Indices: 110854465--110854692 Score: 94
Period size: 3 Copynumber: 72.3 Consensus size: 3
110854455 TTTATTTTTT
* *
110854465 TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
** * *
110854509 TCTCA TGTA TATA TTA TTA TTTA TTA TTA TTA -TA TTA TATA TGCC CTC
1 T-T-A T-TA T-TA TTA TTA -TTA TTA TTA TTA TTA TTA T-TA T-TA TTA
* * * * *
110854557 TCCA -TA TTTA TT- TATA TTA TTA CTA TCA TTA TTG TTA CTT- CTA TTA
1 T-TA TTA -TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
* * * *
110854603 TTT TTA TT- TCTGA CTA CTA TTA TTA TATA TATA TATA TGTA TTA TTG
1 TTA TTA TTA T-T-A TTA TTA TTA TTA T-TA T-TA T-TA T-TA TTA TTA
110854650 TT- TGTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
110854693 CACCCCTATT
Statistics
Matches: 175, Mismatches: 29, Indels: 42
0.71 0.12 0.17
Matches are distributed among these distances:
2 9 0.05
3 131 0.75
4 33 0.19
5 2 0.01
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:110856928 original size:45 final size:46
Alignment explanation
Indices: 110856765--110856939 Score: 216
Period size: 45 Copynumber: 3.8 Consensus size: 46
110856755 TGGTTGAGCA
*
110856765 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
110856811 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
110856856 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
110856904 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
110856940 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 37 0.33
46 29 0.26
47 29 0.26
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:110864378 original size:46 final size:46
Alignment explanation
Indices: 110864328--110864503 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
110864318 TGGTTGAGCA
110864328 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
110864374 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
110864419 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
110864467 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
110864504 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:110864484 original size:93 final size:93
Alignment explanation
Indices: 110864325--110864496 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
110864315 GGATGGTTGA
* *
110864325 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
110864390 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
110864418 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
110864483 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
110864497 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:110867489 original size:40 final size:40
Alignment explanation
Indices: 110867431--110867584 Score: 179
Period size: 40 Copynumber: 3.8 Consensus size: 40
110867421 GATTGACTTG
*
110867431 ACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGC
1 ACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTAGC
*
110867471 ACGAATGCCTTCGGGTCTTAGCCCGGATAT-ACACACTAGC
1 ACAAATGCCTTCGGGTCTTAGCCCGGATATAACA-ACTAGC
*
110867511 ACTAAATTGCCTTCGGG-CTTAACCCGGATATAATTTC-ACTAGC
1 AC-AAA-TGCCTTCGGGTCTTAGCCCGGATATAA---CAACTAGC
* *
110867554 ATAATATGCCTTCGGGACTTAGCCCGGATAT
1 ACAA-ATGCCTTCGGGTCTTAGCCCGGATAT
110867585 CATTCAATTT
Statistics
Matches: 99, Mismatches: 6, Indels: 15
0.82 0.05 0.12
Matches are distributed among these distances:
39 3 0.03
40 36 0.36
41 15 0.15
42 23 0.23
43 21 0.21
45 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
ACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTAGC
Found at i:110874180 original size:45 final size:46
Alignment explanation
Indices: 110874017--110874191 Score: 216
Period size: 45 Copynumber: 3.8 Consensus size: 46
110874007 TGGTTGAGCA
*
110874017 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
110874063 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
110874108 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
110874156 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
110874192 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 37 0.33
46 29 0.26
47 29 0.26
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:110881617 original size:46 final size:46
Alignment explanation
Indices: 110881567--110881742 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
110881557 TGGTTGAGCA
110881567 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
110881613 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
110881658 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
110881706 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
110881743 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:110881723 original size:93 final size:93
Alignment explanation
Indices: 110881564--110881735 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
110881554 GGATGGTTGA
* *
110881564 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
110881629 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
110881657 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
110881722 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
110881736 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:110891124 original size:3 final size:3
Alignment explanation
Indices: 110891116--110891151 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
110891106 TTTTCTCAAT
110891116 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
110891152 GTAAATATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:110899289 original size:39 final size:37
Alignment explanation
Indices: 110899233--110899327 Score: 102
Period size: 39 Copynumber: 2.5 Consensus size: 37
110899223 CACTCCAGTA
* *
110899233 TGGCACCTAGTGCCTCATCAG-ATAGTTTGAAGCAATAGT
1 TGGCACCCAGTGCCTCATCAGCAAAG-TTGAAG-AA-AGT
* *
110899272 TGGCACCCAGTGTCTCATCGGCAAAGTTGAAGAAAGT
1 TGGCACCCAGTGCCTCATCAGCAAAGTTGAAGAAAGT
* *
110899309 TGGTACCCAGTACCTCATC
1 TGGCACCCAGTGCCTCATC
110899328 GAATCTATCC
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.25
Consensus pattern (37 bp):
TGGCACCCAGTGCCTCATCAGCAAAGTTGAAGAAAGT
Found at i:110899861 original size:17 final size:18
Alignment explanation
Indices: 110899829--110899862 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
110899819 AATTTCTTTT
110899829 CAATTTATACCCTAATTC
1 CAATTTATACCCTAATTC
*
110899847 CAATTTA-ATCCTAATT
1 CAATTTATACCCTAATT
110899863 AACTCATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (18 bp):
CAATTTATACCCTAATTC
Found at i:110901977 original size:25 final size:25
Alignment explanation
Indices: 110901931--110901978 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
110901921 TTATAATATG
* * *
110901931 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
*
110901956 AAAATGACCATTATACCTCTAGG
1 AAAATGACCATTATACCCCTAGG
110901979 GTTTATATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:110902047 original size:20 final size:20
Alignment explanation
Indices: 110902022--110902080 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
110902012 TAAACATGGT
*
110902022 ATGTATGGTATGCATATGAC
1 ATGTATGATATGCATATGAC
*
110902042 ATGTATGATATGCATATGAT
1 ATGTATGATATGCATATGAC
*
110902062 ATGTATGATATGCACATGA
1 ATGTATGATATGCATATGA
110902081 TGTATTCGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.36
Consensus pattern (20 bp):
ATGTATGATATGCATATGAC
Found at i:110902048 original size:9 final size:9
Alignment explanation
Indices: 110902021--110902073 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
110902011 ATAAACATGG
*
110902021 TATGTATGG
1 TATGTATGA
110902030 TATGCATATGA
1 TATG--TATGA
*
110902041 CATGTATGA
1 TATGTATGA
110902050 TATGCATATGA
1 TATG--TATGA
110902061 TATGTATGA
1 TATGTATGA
110902070 TATG
1 TATG
110902074 CACATGATGT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
9 21 0.57
11 16 0.43
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.40
Consensus pattern (9 bp):
TATGTATGA
Done.