Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold127
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: 4281254
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
File 22 of 26
Found at i:3526802 original size:15 final size:15
Alignment explanation
Indices: 3526773--3526827 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
3526763 TATTTTAGCA
**
3526773 TTAAATATTGTTATT
1 TTAAATATTAATATT
*
3526788 TGAAATATTAATATT
1 TTAAATATTAATATT
* *
3526803 TTAAAAATAAATAGTT
1 TTAAATATTAATA-TT
3526819 TTAAATATT
1 TTAAATATT
3526828 TTAATAATTA
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
15 22 0.71
16 9 0.29
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.49
Consensus pattern (15 bp):
TTAAATATTAATATT
Found at i:3526890 original size:29 final size:29
Alignment explanation
Indices: 3526857--3526914 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
3526847 TATTTATTGA
3526857 GTTATCCAAATATAAAAAAAATCTCTACC
1 GTTATCCAAATATAAAAAAAATCTCTACC
*
3526886 GTTATCCAAATATTAAAAAAATCTCTACC
1 GTTATCCAAATATAAAAAAAATCTCTACC
3526915 TTTCTAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.47, C:0.21, G:0.03, T:0.29
Consensus pattern (29 bp):
GTTATCCAAATATAAAAAAAATCTCTACC
Found at i:3529358 original size:37 final size:37
Alignment explanation
Indices: 3529316--3529388 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
3529306 AGGGAACAAG
*
3529316 TTTAATTGAACAGTTGAAATTAGTAAACATTCTTTTC
1 TTTAATTGAACAGTCGAAATTAGTAAACATTCTTTTC
3529353 TTTAATTGAACAGTCGAAATTAGTAAACATTCTTTT
1 TTTAATTGAACAGTCGAAATTAGTAAACATTCTTTT
3529389 TCTTAAATAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (37 bp):
TTTAATTGAACAGTCGAAATTAGTAAACATTCTTTTC
Found at i:3533830 original size:2 final size:2
Alignment explanation
Indices: 3533817--3533846 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
3533807 ATATCAAGCA
*
3533817 AG AG AG AA 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
3533847 CTCATAACCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3534291 original size:27 final size:26
Alignment explanation
Indices: 3534261--3534311 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
3534251 ACATGTAAAA
3534261 TAGATGGAGATACA-ATATCAACAAACC
1 TAGAT-GAGATACATA-ATCAACAAACC
*
3534288 TAGATGAGATTCATAATCAACAAA
1 TAGATGAGATACATAATCAACAAA
3534312 TCTGGAACGC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.49, C:0.16, G:0.14, T:0.22
Consensus pattern (26 bp):
TAGATGAGATACATAATCAACAAACC
Found at i:3536333 original size:30 final size:30
Alignment explanation
Indices: 3536293--3536366 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
3536283 TTAATTTATA
* *
3536293 TTAAAAATTTATTTAGGTATAAATTAAAA-G
1 TTAAAGATTTATTTAGGTACAAA-TAAAACG
*
3536323 TTAATGATTTATTTAGGTACAAATAAAACG
1 TTAAAGATTTATTTAGGTACAAATAAAACG
*
3536353 TTAAAGACTTATTT
1 TTAAAGATTTATTT
3536367 GGACACAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
29 5 0.13
30 33 0.87
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.41
Consensus pattern (30 bp):
TTAAAGATTTATTTAGGTACAAATAAAACG
Found at i:3537636 original size:2 final size:2
Alignment explanation
Indices: 3537624--3537675 Score: 56
Period size: 2 Copynumber: 27.0 Consensus size: 2
3537614 TCAAATTAGC
*
3537624 AT AT AT CAT AT AT -T AT AT AT AT -T AT AT A- AT AA 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
*
3537664 AT AT AC AT AT AT
1 AT AT AT AT AT AT
3537676 GTATGTATGA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
1 3 0.07
2 37 0.88
3 2 0.05
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:3537643 original size:9 final size:8
Alignment explanation
Indices: 3537624--3537675 Score: 56
Period size: 7 Copynumber: 6.8 Consensus size: 8
3537614 TCAAATTAGC
3537624 ATATATCAT
1 ATATAT-AT
3537633 ATAT-TAT
1 ATATATAT
3537640 ATATAT-T
1 ATATATAT
3537647 ATATA-AT
1 ATATATAT
*
3537654 AAATATAT
1 ATATATAT
*
3537662 ATATATAC
1 ATATATAT
3537670 ATATAT
1 ATATAT
3537676 GTATGTATGA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
7 17 0.46
8 16 0.43
9 4 0.11
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (8 bp):
ATATATAT
Found at i:3538998 original size:22 final size:21
Alignment explanation
Indices: 3538972--3539021 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
3538962 AAAATTAAAG
3538972 TAATTTGAAATAAACATTTATA
1 TAATTTGAAATAAA-ATTTATA
**
3538994 TAATTTTTTAATAAAATTTATA
1 TAA-TTTGAAATAAAATTTATA
*
3539016 TTATTT
1 TAATTT
3539022 AATTTGATCG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 3 0.12
22 12 0.50
23 9 0.38
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (21 bp):
TAATTTGAAATAAAATTTATA
Found at i:3539367 original size:2 final size:2
Alignment explanation
Indices: 3539360--3539386 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3539350 AAGATAAGGG
3539360 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
3539387 AAGTGAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3539953 original size:17 final size:17
Alignment explanation
Indices: 3539931--3539964 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3539921 ATATTGTCCC
3539931 CTTTTGACATACTGACA
1 CTTTTGACATACTGACA
*
3539948 CTTTTGACATAGTGACA
1 CTTTTGACATACTGACA
3539965 ATTTGATTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (17 bp):
CTTTTGACATACTGACA
Found at i:3540154 original size:3 final size:3
Alignment explanation
Indices: 3540146--3540176 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
3540136 CATAATTTTG
3540146 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
3540177 TCTACTTATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:3540390 original size:2 final size:2
Alignment explanation
Indices: 3540383--3540410 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3540373 CGAATCAATC
3540383 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
3540411 GCTTAGCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3542371 original size:6 final size:6
Alignment explanation
Indices: 3542360--3542385 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
3542350 GATACATGTT
3542360 TAAATA TAAATA TAAATA TAAATA TA
1 TAAATA TAAATA TAAATA TAAATA TA
3542386 CAAATATAAT
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
TAAATA
Found at i:3542502 original size:53 final size:54
Alignment explanation
Indices: 3542419--3542522 Score: 149
Period size: 53 Copynumber: 1.9 Consensus size: 54
3542409 TAAAAATTTT
* *
3542419 AAAAAAATTAAATAATATTTATATCAAAATATATATAAATAACCAACTCTTAAA
1 AAAAAAATTAAATAATACTTATATCAAAATATACATAAATAACCAACTCTTAAA
* *
3542473 AAAAAAATTAAACT-ATACTTATATC-AAATATACATAGATATCCAACTCTT
1 AAAAAAATTAAA-TAATACTTATATCAAAATATACATAAATAACCAACTCTT
3542523 TGTCCTTGAG
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
53 22 0.49
54 22 0.49
55 1 0.02
ACGTcount: A:0.55, C:0.12, G:0.01, T:0.32
Consensus pattern (54 bp):
AAAAAAATTAAATAATACTTATATCAAAATATACATAAATAACCAACTCTTAAA
Found at i:3542924 original size:22 final size:22
Alignment explanation
Indices: 3542899--3542943 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
3542889 CTGCCCACAG
*
3542899 CAAAGAGATTGAAATATTTAAA
1 CAAAGAGATTGAAATATTAAAA
3542921 CAAAGAGATTGAAATATTAAAA
1 CAAAGAGATTGAAATATTAAAA
3542943 C
1 C
3542944 CATATATGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.56, C:0.07, G:0.13, T:0.24
Consensus pattern (22 bp):
CAAAGAGATTGAAATATTAAAA
Found at i:3548080 original size:16 final size:16
Alignment explanation
Indices: 3548056--3548097 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
3548046 AAAAGTTAAA
*
3548056 AATTCGAACTTGAAAT
1 AATTTGAACTTGAAAT
*
3548072 AATTTGAACCTGAAAT
1 AATTTGAACTTGAAAT
*
3548088 AGTTTGAACT
1 AATTTGAACT
3548098 CGAGAAAGTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.33
Consensus pattern (16 bp):
AATTTGAACTTGAAAT
Found at i:3548144 original size:16 final size:16
Alignment explanation
Indices: 3548107--3548145 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
3548097 TCGAGAAAGT
3548107 CCGAACTTGAAAAAAC
1 CCGAACTTGAAAAAAC
** *
3548123 TAGAACTTGAAAGAAC
1 CCGAACTTGAAAAAAC
3548139 CCGAACT
1 CCGAACT
3548146 CGTAAAAACT
Statistics
Matches: 18, Mismatches: 5, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.46, C:0.23, G:0.15, T:0.15
Consensus pattern (16 bp):
CCGAACTTGAAAAAAC
Found at i:3550735 original size:99 final size:100
Alignment explanation
Indices: 3550572--3550752 Score: 267
Period size: 99 Copynumber: 1.8 Consensus size: 100
3550562 AGTATTGATT
* * * *
3550572 ATTATGTTTTTAATTAATTGATGATATTTTTATTAAAATTAAAATATTGAGTAATTTTATTATTA
1 ATTATGTTTTTAATTAATTAATAATATTTTTATTAAAATTAAAATATAGAATAATTTTATTATTA
*
3550637 -ATTTTGAATTCTTTATTAACGTAATACTATGGATC
66 TA-CTTGAATTCTTTATTAACGTAATACTATGGATC
* * *
3550672 ATTATGTTTTTAATTAATTAATAAT-TTTTTATTTAGATTAAAATATAGAATAATTTTCTTATTA
1 ATTATGTTTTTAATTAATTAATAATATTTTTATTAAAATTAAAATATAGAATAATTTTATTATTA
3550736 TACTTGAATTCTTTATT
66 TACTTGAATTCTTTATT
3550753 CACATAAATA
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
99 48 0.67
100 24 0.33
ACGTcount: A:0.36, C:0.04, G:0.07, T:0.53
Consensus pattern (100 bp):
ATTATGTTTTTAATTAATTAATAATATTTTTATTAAAATTAAAATATAGAATAATTTTATTATTA
TACTTGAATTCTTTATTAACGTAATACTATGGATC
Found at i:3551267 original size:16 final size:16
Alignment explanation
Indices: 3551215--3551267 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
3551205 CCTAAAAAAA
**
3551215 AACTTAAACCCGAATG
1 AACTTAAACTTGAATG
* *
3551231 AACTCAAACTTGAATA
1 AACTTAAACTTGAATG
3551247 AACTTAAACTTGAATG
1 AACTTAAACTTGAATG
3551263 AACTT
1 AACTT
3551268 GAATCTTAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.45, C:0.19, G:0.09, T:0.26
Consensus pattern (16 bp):
AACTTAAACTTGAATG
Found at i:3552793 original size:20 final size:22
Alignment explanation
Indices: 3552765--3552819 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 22
3552755 ATACAATATT
*
3552765 TATAT-TATTTTTTACATTATA
1 TATATATATTTTTTACATTACA
* *
3552786 -AT-TATATTTTATATATTACA
1 TATATATATTTTTTACATTACA
3552806 TATATATATTTTTT
1 TATATATATTTTTT
3552820 GATACATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
19 1 0.04
20 15 0.56
21 2 0.07
22 9 0.33
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (22 bp):
TATATATATTTTTTACATTACA
Found at i:3553273 original size:26 final size:27
Alignment explanation
Indices: 3553225--3553279 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
3553215 TTAAATATTG
* *
3553225 AATAATTATATAAAATCGATTGATGTA
1 AATAATTATAAAAAATCGATTGAAGTA
3553252 AATAATTA-AAAAAATTCG-TTGAAGTA
1 AATAATTATAAAAAA-TCGATTGAAGTA
3553278 AA
1 AA
3553280 AGAATCTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.53, C:0.04, G:0.11, T:0.33
Consensus pattern (27 bp):
AATAATTATAAAAAATCGATTGAAGTA
Found at i:3553540 original size:18 final size:17
Alignment explanation
Indices: 3553508--3553559 Score: 52
Period size: 18 Copynumber: 3.1 Consensus size: 17
3553498 TATATTTATA
* *
3553508 TTATTTTATATTTATATT
1 TTATTTTAAAATTAT-TT
3553526 TTATTTTAAAATTATTT
1 TTATTTTAAAATTATTT
**
3553543 TTAAGTTAAAA-TATTT
1 TTATTTTAAAATTATTT
3553559 T
1 T
3553560 ATATAATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
16 6 0.20
17 11 0.37
18 13 0.43
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TTATTTTAAAATTATTT
Found at i:3554920 original size:31 final size:31
Alignment explanation
Indices: 3554858--3554921 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
3554848 TATAAATTAA
* * *
3554858 AAATTAAATTAAATATATATTATTAATATTT
1 AAATTAAATTAAATAAATATTAATAAAATTT
*
3554889 AAATTAAATTAATTTAAAT-TTAATAAAATTT
1 AAATTAAATTAA-ATAAATATTAATAAAATTT
3554920 AA
1 AA
3554922 GCTAAAATTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 24 0.86
32 4 0.14
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (31 bp):
AAATTAAATTAAATAAATATTAATAAAATTT
Found at i:3555817 original size:14 final size:15
Alignment explanation
Indices: 3555798--3555830 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
3555788 TATTATTTAT
3555798 TATTTTAATA-AAAA
1 TATTTTAATATAAAA
*
3555812 TATTTTTATATAAAA
1 TATTTTAATATAAAA
3555827 TATT
1 TATT
3555831 ATTATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTTAATATAAAA
Found at i:3555826 original size:16 final size:15
Alignment explanation
Indices: 3555798--3555835 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
3555788 TATTATTTAT
*
3555798 TATTTTAATA-AAAA
1 TATTTTTATATAAAA
3555812 TATTTTTATATAAAA
1 TATTTTTATATAAAA
*
3555827 TATTATTAT
1 TATTTTTAT
3555836 TTTAATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATTTTTATATAAAA
Found at i:3556487 original size:19 final size:19
Alignment explanation
Indices: 3556463--3556499 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3556453 AAAAAACCTT
*
3556463 TATTTTTCAATAATATTTA
1 TATTTTTCAAAAATATTTA
*
3556482 TATTTTTTAAAAATATTT
1 TATTTTTCAAAAATATTT
3556500 TCTAAAAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTTTTCAAAAATATTTA
Found at i:3558765 original size:348 final size:348
Alignment explanation
Indices: 3557674--3558842 Score: 2024
Period size: 348 Copynumber: 3.3 Consensus size: 348
3557664 AATAAGTTCA
* *
3557674 ATGATGACAACTTCAAAGGCTTGTTTCTCTA-AAACATTCGCAGTGGCCGCCTAAGAGCTTTCGC
1 ATGATGACAAATCCAAAGGCTTGTTTCTC-AGAAACATTCGCAGTGGCCGCCTAAGAGCTTTCGC
*
3557738 CTTCGCCAGGCTGGAGAGCTTGTGCTGCTTCAATCCTTCCTTGGATGTCTGAGGCC-TTCAAGAG
65 CTTCGCCAGGCTTGAGAGCTTGTGCTGCTTCAATCCTTCCTTGGATGTCTGAGGCCTTTCAAGAG
* * * *
3557802 ACTCCTAAATCATCGTTTTTGTATCGTTGCTGTGCTTGAAAATGCTGCTATTTTATTTAGTGTTT
130 ACTCCTAAATCATTGTTTTTGTATCGTTGCTGTGCTTGAAAATGCTGCTATTATCTTTAGTGTGT
* *
3557867 TCTTAGTTACTCCATCAATTCAAT-CTTTTTTTTTTCACTTTCTTGCTGGTGA-TTGTAGTAC-T
195 TCTTAGTTACTCCATCAATTCAATCCTTTTTTTTTTCACTTTCTTGCT-GT-ACTT-T-GTTCAA
* * * * *
3557929 TTGATCACATGGTACGTAACATAATTTGAGTCTATGTTGCTCCTGGACTTAGTATTCAACACTCA
256 ATGGT-ACAT--TA-GTAACATCA-TT---TCTATGCTGCTCCTGGACTTAGTATTCAACATTCA
3557994 TACTCGCATTTAGTGATGTTTTTGGTGGTTAGGTTG
313 TACTCGCATTTAGTGATGTTTTTGGTGGTTAGGTTG
3558030 ATGATGACAAATCCAAAGGCTTGTTTCTCAGAAACATTCGCAGTGGCCGCCTAAGAGCTTTCGCC
1 ATGATGACAAATCCAAAGGCTTGTTTCTCAGAAACATTCGCAGTGGCCGCCTAAGAGCTTTCGCC
3558095 TTCGCCAGGCTTGAGAGCTTGTGCTGCTTCAATCCTTCCTTGGATGTCTGAGGCCTTTCAAGAGA
66 TTCGCCAGGCTTGAGAGCTTGTGCTGCTTCAATCCTTCCTTGGATGTCTGAGGCCTTTCAAGAGA
3558160 CTCCTAAATCATTGTTTTTGTATCGTTGCTGTGCTTGAAAAATGCTGCTATTATCTTTAGTGTGT
131 CTCCTAAATCATTGTTTTTGTATCGTTGCTGTGCTTG-AAAATGCTGCTATTATCTTTAGTGTGT
3558225 TCTTAGTTACTCCATCAATTCAATCCTTTTTTTTTTCACTTTCTTGCTGTACTTTGTTCAAATGG
195 TCTTAGTTACTCCATCAATTCAATCCTTTTTTTTTTCACTTTCTTGCTGTACTTTGTTCAAATGG
3558290 TACATTAGTAACATCATTTCTATGCTGCTCCTGGACTTAGTATTCAACATTCATACTCGCATTTA
260 TACATTAGTAACATCATTTCTATGCTGCTCCTGGACTTAGTATTCAACATTCATACTCGCATTTA
3558355 GTGATGTTTTTGGTGGTTAGGTTG
325 GTGATGTTTTTGGTGGTTAGGTTG
3558379 ATGATGACAAATCCAAAGGCTTGTTTCTCAGAAACATTCGCAGTGGCCGCCTAAGAGCTTTCGCC
1 ATGATGACAAATCCAAAGGCTTGTTTCTCAGAAACATTCGCAGTGGCCGCCTAAGAGCTTTCGCC
3558444 TTCGCCAGGCTTGAGAGCTTGTGCTGCTTCAATCCTTCCTTGGATGTCTGAGGCCTTTCAAGAGA
66 TTCGCCAGGCTTGAGAGCTTGTGCTGCTTCAATCCTTCCTTGGATGTCTGAGGCCTTTCAAGAGA
*
3558509 CTCCTAAATCATTGTTTTTGTAACGTTGCTGTGCTTGAAAATGCTGCTATTATCTTTAGTGTGTT
131 CTCCTAAATCATTGTTTTTGTATCGTTGCTGTGCTTGAAAATGCTGCTATTATCTTTAGTGTGTT
3558574 CTTAGTTACTCCATCAATTCAATCCTTTTTTTTTTCACTTTCTTGCTGTACTTTGTTCAAATGGT
196 CTTAGTTACTCCATCAATTCAATCCTTTTTTTTTTCACTTTCTTGCTGTACTTTGTTCAAATGGT
*
3558639 ACATTAGTAACATCATTTCTATGCTGCTCCCGGACTTAGTATTCAACATTCATACTCGCATTTAG
261 ACATTAGTAACATCATTTCTATGCTGCTCCTGGACTTAGTATTCAACATTCATACTCGCATTTAG
*
3558704 TGATGTTTTTGGTGGTTTGGTTG
326 TGATGTTTTTGGTGGTTAGGTTG
3558727 ATGATGACAAATCCAAAGGCTTGTTTCTCAGAAACATTCGCAGTGGCCGCCTAAGAGCTTTCGCC
1 ATGATGACAAATCCAAAGGCTTGTTTCTCAGAAACATTCGCAGTGGCCGCCTAAGAGCTTTCGCC
3558792 TTCGCCAGGCTTGAGAGCTTGTGCTGCTTCAATCCTTCCTTGGATGTCTGA
66 TTCGCCAGGCTTGAGAGCTTGTGCTGCTTCAATCCTTCCTTGGATGTCTGA
3558843 AACTTTTTAA
Statistics
Matches: 790, Mismatches: 17, Indels: 20
0.96 0.02 0.02
Matches are distributed among these distances:
348 295 0.37
349 235 0.30
352 2 0.00
353 8 0.01
354 2 0.00
355 1 0.00
356 122 0.15
357 50 0.06
358 52 0.07
359 23 0.03
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (348 bp):
ATGATGACAAATCCAAAGGCTTGTTTCTCAGAAACATTCGCAGTGGCCGCCTAAGAGCTTTCGCC
TTCGCCAGGCTTGAGAGCTTGTGCTGCTTCAATCCTTCCTTGGATGTCTGAGGCCTTTCAAGAGA
CTCCTAAATCATTGTTTTTGTATCGTTGCTGTGCTTGAAAATGCTGCTATTATCTTTAGTGTGTT
CTTAGTTACTCCATCAATTCAATCCTTTTTTTTTTCACTTTCTTGCTGTACTTTGTTCAAATGGT
ACATTAGTAACATCATTTCTATGCTGCTCCTGGACTTAGTATTCAACATTCATACTCGCATTTAG
TGATGTTTTTGGTGGTTAGGTTG
Found at i:3563698 original size:25 final size:25
Alignment explanation
Indices: 3563670--3563751 Score: 76
Period size: 27 Copynumber: 3.2 Consensus size: 25
3563660 CAATTTCTAT
3563670 TTTTATTTAAAAAAAATTACTTATC
1 TTTTATTTAAAAAAAATTACTTATC
* *
3563695 TTTTTATTTGAAAAATTAACTT-CTTATT
1 -TTTTATTT-AAAAA--AAATTACTTATC
* * *
3563723 TTTTATTTTAAAAAAACTACCTATC
1 TTTTATTTAAAAAAAATTACTTATC
3563748 TTTT
1 TTTT
3563752 CAATTTTAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
24 3 0.07
25 8 0.18
26 12 0.27
27 13 0.29
28 5 0.11
29 4 0.09
ACGTcount: A:0.37, C:0.10, G:0.01, T:0.52
Consensus pattern (25 bp):
TTTTATTTAAAAAAAATTACTTATC
Found at i:3563702 original size:26 final size:26
Alignment explanation
Indices: 3563669--3563751 Score: 89
Period size: 26 Copynumber: 3.2 Consensus size: 26
3563659 TCAATTTCTA
3563669 TTTTTATTTAAAAAAAATTACTTATC
1 TTTTTATTTAAAAAAAATTACTTATC
*
3563695 TTTTTATTTGAAAAATTAACTT-CTTAT-
1 TTTTTATTT-AAAAA--AAATTACTTATC
* * *
3563722 TTTTTATTTTAAAAAAACTACCTATC
1 TTTTTATTTAAAAAAAATTACTTATC
3563748 TTTT
1 TTTT
3563752 CAATTTTAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
24 3 0.06
25 4 0.09
26 17 0.36
27 14 0.30
28 5 0.11
29 4 0.09
ACGTcount: A:0.36, C:0.10, G:0.01, T:0.53
Consensus pattern (26 bp):
TTTTTATTTAAAAAAAATTACTTATC
Found at i:3564046 original size:11 final size:10
Alignment explanation
Indices: 3564021--3564077 Score: 61
Period size: 9 Copynumber: 6.1 Consensus size: 10
3564011 TACTATTATT
3564021 AATATAA-AA
1 AATATAATAA
3564030 AA-ATAATTAA
1 AATATAA-TAA
*
3564040 AATATAATAT
1 AATATAATAA
3564050 AATATAA-AA
1 AATATAATAA
3564059 AATA-AATAA
1 AATATAATAA
3564068 AATAT-ATAA
1 AATATAATAA
3564077 A
1 A
3564078 TAAATCAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
8 6 0.15
9 18 0.44
10 13 0.32
11 4 0.10
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
AATATAATAA
Found at i:3564066 original size:18 final size:17
Alignment explanation
Indices: 3564024--3564194 Score: 77
Period size: 17 Copynumber: 9.8 Consensus size: 17
3564014 TATTATTAAT
*
3564024 ATAAA-AAAATAATTAAA
1 ATAAATAAAAT-ATAAAA
*
3564041 ATATAATATAATATAAAAA
1 ATA-AATAAAATAT-AAAA
*
3564060 ATAAATAAAATATATAA
1 ATAAATAAAATATAAAA
*
3564077 ATAAATCAAATTTTATATAAA
1 ATAAAT-AAA--ATATA-AAA
3564098 ATAAATTATCAATATATAAAA
1 ATAAA-TA--AA-ATATAAAA
** *
3564119 ATTTATATAAATAT-ATA
1 ATAAATA-AAATATAAAA
** *
3564136 ATATTTTAAATATAAAA
1 ATAAATAAAATATAAAA
3564153 ATAAAT--AATAT--AA
1 ATAAATAAAATATAAAA
* *
3564166 ATACATAAAATAAAAAA
1 ATAAATAAAATATAAAA
3564183 ATAAA-AAAATAT
1 ATAAATAAAATAT
3564195 TATTTATGAT
Statistics
Matches: 118, Mismatches: 21, Indels: 31
0.69 0.12 0.18
Matches are distributed among these distances:
13 7 0.06
15 9 0.08
16 12 0.10
17 30 0.25
18 20 0.17
19 12 0.10
20 6 0.05
21 14 0.12
22 6 0.05
23 2 0.02
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAAATAAAATATAAAA
Found at i:3564148 original size:22 final size:21
Alignment explanation
Indices: 3564123--3564187 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
3564113 ATAAAAATTT
* * *
3564123 ATATAAATATATAATATTTTAA
1 ATATAAAAATA-AATAATATAA
3564145 ATATAAAAATAAATAATATAA
1 ATATAAAAATAAATAATATAA
* *
3564166 ATACATAAAATAAA-AAAATAA
1 ATATA-AAAATAAATAATATAA
3564187 A
1 A
3564188 AAAATATTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
21 19 0.51
22 18 0.49
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (21 bp):
ATATAAAAATAAATAATATAA
Found at i:3564173 original size:13 final size:13
Alignment explanation
Indices: 3564142--3564193 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
3564132 TATAATATTT
*
3564142 TAAATATAA-AAA
1 TAAATAAAATAAA
*
3564154 TAAATAATATAAA
1 TAAATAAAATAAA
*
3564167 TACATAAAATAAA
1 TAAATAAAATAAA
*
3564180 AAAATAAAA-AAA
1 TAAATAAAATAAA
3564192 TA
1 TA
3564194 TTATTTATGA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
12 11 0.34
13 21 0.66
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (13 bp):
TAAATAAAATAAA
Found at i:3564564 original size:11 final size:11
Alignment explanation
Indices: 3564535--3564564 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
3564525 CTCGAAGTAG
*
3564535 CCACGTCCGAT
1 CCACGTCTGAT
3564546 CCACGTCTGAT
1 CCACGTCTGAT
3564557 CCACGTCT
1 CCACGTCT
3564565 TCATTTCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.43, G:0.17, T:0.23
Consensus pattern (11 bp):
CCACGTCTGAT
Found at i:3564870 original size:3 final size:3
Alignment explanation
Indices: 3564862--3564895 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
3564852 AACTTTAAAG
3564862 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
3564896 GATAAAGTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:3565686 original size:13 final size:13
Alignment explanation
Indices: 3565668--3565693 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3565658 TAATTTTTTG
3565668 TGTATCGATACAT
1 TGTATCGATACAT
3565681 TGTATCGATACAT
1 TGTATCGATACAT
3565694 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3566442 original size:21 final size:21
Alignment explanation
Indices: 3566401--3566444 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
3566391 CTCCCCTTTA
* *
3566401 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
3566422 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
3566443 TC
1 TC
3566445 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:3568245 original size:13 final size:13
Alignment explanation
Indices: 3568227--3568252 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3568217 ATAATCACCC
3568227 TGTATCGATACAA
1 TGTATCGATACAA
3568240 TGTATCGATACAA
1 TGTATCGATACAA
3568253 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3570342 original size:15 final size:15
Alignment explanation
Indices: 3570322--3570352 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3570312 ATTTCGTTTG
*
3570322 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
3570337 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
3570352 G
1 G
3570353 GACATTTTTA
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:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:3572185 original size:21 final size:21
Alignment explanation
Indices: 3572156--3572200 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3572146 AAGTTTTCAT
*
3572156 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
3572176 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
3572198 TTT
1 TTT
3572201 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:3574434 original size:13 final size:13
Alignment explanation
Indices: 3574416--3574441 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3574406 CAATTTTTTG
3574416 TGTATCGATACAT
1 TGTATCGATACAT
3574429 TGTATCGATACAT
1 TGTATCGATACAT
3574442 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3575106 original size:16 final size:14
Alignment explanation
Indices: 3575084--3575126 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 14
3575074 TAAATATTAA
3575084 AATTATATTTTTATT
1 AATTATATTTTT-TT
3575099 ATATTATATTATTTTT
1 A-ATTATATT-TTTTT
3575115 AATTATTATTTT
1 AATTA-TATTTT
3575127 AATATTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 7 0.28
16 15 0.60
17 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
AATTATATTTTTTT
Found at i:3578366 original size:22 final size:20
Alignment explanation
Indices: 3578341--3578385 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
3578331 TAATTGTAAT
3578341 TTAAAAATAAAAATTATAAATA
1 TTAAAAATAAAAATT-TAAA-A
* *
3578363 TTAAAATTTAAAATTTAAAA
1 TTAAAAATAAAAATTTAAAA
3578383 TTA
1 TTA
3578386 TTTAATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 4 0.19
22 13 0.62
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TTAAAAATAAAAATTTAAAA
Found at i:3578373 original size:7 final size:7
Alignment explanation
Indices: 3578338--3578384 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
3578328 TTATAATTGT
3578338 AATTTAA
1 AATTTAA
*
3578345 AA-ATAA
1 AATTTAA
*
3578351 AAATTATA
1 AATTTA-A
3578359 AATATTAA
1 AAT-TTAA
3578367 AATTTAA
1 AATTTAA
3578374 AATTTAA
1 AATTTAA
3578381 AATT
1 AATT
3578385 ATTTAATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
6 5 0.15
7 19 0.56
8 7 0.21
9 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
AATTTAA
Found at i:3578657 original size:13 final size:13
Alignment explanation
Indices: 3578641--3578683 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
3578631 TTATATTAAT
3578641 TATTTTTTAAAAA
1 TATTTTTTAAAAA
3578654 TA--TTTTAAAAA
1 TATTTTTTAAAAA
* *
3578665 TATTTTTTTAATA
1 TATTTTTTAAAAA
3578678 TATTTT
1 TATTTT
3578684 AATATTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 11 0.42
13 15 0.58
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TATTTTTTAAAAA
Found at i:3578664 original size:12 final size:11
Alignment explanation
Indices: 3578645--3578670 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
3578635 ATTAATTATT
3578645 TTTTAAAAATA
1 TTTTAAAAATA
3578656 TTTTAAAAATA
1 TTTTAAAAATA
3578667 TTTT
1 TTTT
3578671 TTTAATATAT
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAAATA
Found at i:3579165 original size:15 final size:15
Alignment explanation
Indices: 3579134--3579209 Score: 55
Period size: 15 Copynumber: 4.7 Consensus size: 15
3579124 TCAACTATAA
*
3579134 TATAATTAA-AATATT
1 TATATTTAATAAT-TT
* *
3579149 TATATTTTATTATTT
1 TATATTTAATAATTT
3579164 TATATTTAATAATTT
1 TATATTTAATAATTT
3579179 AATATTATTTAATAATTACT
1 --TA-TATTTAATAATT--T
*
3579199 TAAATTTAATA
1 TATATTTAATA
3579210 TTATTTACTT
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
15 22 0.45
16 2 0.04
17 10 0.20
18 14 0.29
20 1 0.02
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (15 bp):
TATATTTAATAATTT
Found at i:3580064 original size:5 final size:6
Alignment explanation
Indices: 3580027--3580061 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
3580017 TAAAAAATAT
3580027 TTTAAA TTTTAAA TTTAAA TTTAAA TTT-AA TTTAA
1 TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
3580062 TTTTGTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.19
6 16 0.59
7 6 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:3580191 original size:21 final size:21
Alignment explanation
Indices: 3580145--3580191 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
3580135 TAAATAAATT
3580145 TTAAAAAATATATTGCTTTAA
1 TTAAAAAATATATTGCTTTAA
* *
3580166 CTAAAAAAT-TATTGTTTTGAA
1 TTAAAAAATATATTGCTTT-AA
3580187 TTAAA
1 TTAAA
3580192 TCAAAATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (21 bp):
TTAAAAAATATATTGCTTTAA
Found at i:3580618 original size:5 final size:5
Alignment explanation
Indices: 3580600--3580667 Score: 55
Period size: 5 Copynumber: 12.6 Consensus size: 5
3580590 TTAAAATATG
* * *
3580600 TATTCA TATTA TATCA TATTA TATTA TATTT TAATTA TTTTA TATATA
1 TATT-A TATTA TATTA TATTA TATTA TATTA T-ATTA TATTA TAT-TA
*
3580648 TATATA TATCA TATTCA TAT
1 TAT-TA TATTA TATT-A TAT
3580668 AATCAAAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
5 28 0.55
6 23 0.45
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (5 bp):
TATTA
Found at i:3581176 original size:30 final size:30
Alignment explanation
Indices: 3581137--3581210 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
3581127 ACGTAATGTT
3581137 AATT-AATATT-AAATATTTATATAAATATA
1 AATTAAATATTAAAAT-TTTATATAAATATA
* *
3581166 AATTAAATATTAAAATTTTATTTATATATA
1 AATTAAATATTAAAATTTTATATAAATATA
*
3581196 AATTAAAAATTAAAA
1 AATTAAATATTAAAA
3581211 AATTATTTGA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
29 4 0.10
30 32 0.80
31 4 0.10
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (30 bp):
AATTAAATATTAAAATTTTATATAAATATA
Found at i:3581217 original size:30 final size:29
Alignment explanation
Indices: 3581160--3581256 Score: 97
Period size: 30 Copynumber: 3.3 Consensus size: 29
3581150 TATTTATATA
* **
3581160 AATATAAATTAAATATTAAAATTTTATTT
1 AATATAAATTAAAAATTAAAAAATTATTT
3581189 ATATATAAATTAAAAATTAAAAAATTATTT
1 A-ATATAAATTAAAAATTAAAAAATTATTT
* * *
3581219 GAGTGTAAATTGAAAA-TAAAAAATTTATTT
1 -AATATAAATTAAAAATTAAAAAA-TTATTT
*
3581249 AATTTAAA
1 AATATAAA
3581257 AATATATAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
29 14 0.25
30 42 0.74
31 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (29 bp):
AATATAAATTAAAAATTAAAAAATTATTT
Found at i:3581304 original size:3 final size:3
Alignment explanation
Indices: 3581296--3581324 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
3581286 AATCATAGAT
3581296 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
3581325 TTAGCTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:3581737 original size:15 final size:15
Alignment explanation
Indices: 3581700--3581737 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
3581690 ATTTTATTAA
3581700 TTATTTTAAATTTTT
1 TTATTTTAAATTTTT
* *
3581715 TAAATTTAAATTTTT
1 TTATTTTAAATTTTT
3581730 TTATTTTA
1 TTATTTTA
3581738 TTAAAAGGTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTATTTTAAATTTTT
Found at i:3586643 original size:16 final size:16
Alignment explanation
Indices: 3586624--3586654 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3586614 GTTGATATTA
*
3586624 AATAAGTAATTAATAT
1 AATAAATAATTAATAT
3586640 AATAAATAATTAATA
1 AATAAATAATTAATA
3586655 AAGATATATA
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:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (16 bp):
AATAAATAATTAATAT
Found at i:3586762 original size:19 final size:21
Alignment explanation
Indices: 3586738--3586785 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
3586728 TATAAAAAAA
3586738 TAAAATAAAT-AAAA-TAATT
1 TAAAATAAATAAAAACTAATT
**
3586757 TAAAATCGATAAAAACTAATT
1 TAAAATAAATAAAAACTAATT
*
3586778 TAATATAA
1 TAAAATAA
3586786 TTTTTTAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
19 8 0.36
20 4 0.18
21 10 0.45
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (21 bp):
TAAAATAAATAAAAACTAATT
Found at i:3587083 original size:16 final size:16
Alignment explanation
Indices: 3587058--3587100 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
3587048 TAACATTGTT
* *
3587058 GTTATGAAAAGTTTGA
1 GTTATAAAAAATTTGA
3587074 GTTATAAAAAATTTGA
1 GTTATAAAAAATTTGA
*
3587090 ATTA-AAAAAAT
1 GTTATAAAAAAT
3587101 ATGTTTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 7 0.29
16 17 0.71
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.35
Consensus pattern (16 bp):
GTTATAAAAAATTTGA
Found at i:3587272 original size:22 final size:23
Alignment explanation
Indices: 3587244--3587287 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
3587234 TATTTTATTT
3587244 AAAAATTAACTTT-TTAACATTA
1 AAAAATTAACTTTCTTAACATTA
* *
3587266 AAAAATTTATTTTCTTAACATT
1 AAAAATTAACTTTCTTAACATT
3587288 TTAATTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (23 bp):
AAAAATTAACTTTCTTAACATTA
Found at i:3588029 original size:19 final size:19
Alignment explanation
Indices: 3587992--3588030 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
3587982 AATTTATTAA
3587992 TTTATATTATATTTATATT
1 TTTATATTATATTTATATT
3588011 TTTATATTATAATTT-TATT
1 TTTATATTAT-ATTTATATT
3588030 T
1 T
3588031 AAAAAATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTATATTATATTTATATT
Found at i:3588796 original size:2 final size:2
Alignment explanation
Indices: 3588791--3588831 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
3588781 AAAAAACAGG
3588791 AT AT AT AT AT AT AT 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 AT AT AT A
3588832 CTTTTCTACT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3589414 original size:18 final size:19
Alignment explanation
Indices: 3589391--3589439 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
3589381 ATAATTTTTT
*
3589391 ATAAATTAATTAAAT-TTA
1 ATAAATTAATTAAATAATA
3589409 ATAAATTTAA-TAAATAATA
1 ATAAA-TTAATTAAATAATA
*
3589428 ATATATTAATTA
1 ATAAATTAATTA
3589440 TTATTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
ATAAATTAATTAAATAATA
Found at i:3589480 original size:26 final size:29
Alignment explanation
Indices: 3589414--3589480 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 29
3589404 ATTTAATAAA
*
3589414 TTTAATAAATAATAATATATTAATTATTATT
1 TTTAATAAA-AACAATATATTAATTA-TATT
3589445 TTTAATAAAAACAATAT-TTAATTA-ATT
1 TTTAATAAAAACAATATATTAATTATATT
3589472 TTTAA-AAAA
1 TTTAATAAAA
3589481 TTTACATTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
26 4 0.11
27 8 0.23
29 7 0.20
30 7 0.20
31 9 0.26
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (29 bp):
TTTAATAAAAACAATATATTAATTATATT
Found at i:3589612 original size:22 final size:22
Alignment explanation
Indices: 3589561--3589614 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
3589551 TATTTTTAAT
* *
3589561 AAAATTAAAAAAATATTTATTT
1 AAAATTAAAAAAATATATATTA
*
3589583 AAATTTAAAAAAAT-TATATTA
1 AAAATTAAAAAAATATATATTA
3589604 ACAAATTAAAA
1 A-AAATTAAAA
3589615 TATTAATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 6 0.22
22 21 0.78
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
AAAATTAAAAAAATATATATTA
Found at i:3589703 original size:109 final size:111
Alignment explanation
Indices: 3589448--3589724 Score: 346
Period size: 109 Copynumber: 2.5 Consensus size: 111
3589438 TATTATTTTT
* * * *
3589448 AATAAAAACAATATTTAATTAATTTTTAAAAAATTTACATTAATAAATTAAAATATTAATTATTT
1 AATAAAAAAAATATTTAATTAA-ATTTAAAAAA-TTACATTAACAAATTAAAATATTAATTATTG
*
3589513 TTAATTTAAAAATTAAATTAAAAAGGGTTTATTATTATTATTTTTAATAA
64 TT-ATTTAAAAA-TAAATTAAAAAGGATTTATTATTATTATTTTTAATAA
* * *
3589563 AATTAAAAAAATATTTATTTAAATTTAAAAAAATTATATTAACAAATTAAAATATTAATTATATG
1 AATAAAAAAAATATTTAATTAAATTT-AAAAAATTACATTAACAAATTAAAATATTAATTAT-TG
* **
3589628 TT-TTT-ATAA-AAA-TAAAAATTATTTATTATTATTATTTTTAATAA
64 TTATTTAAAAATAAATTAAAAAGGATTTATTATTATTATTTTTAATAA
*
3589672 AATAAAAAATAATCTTTAATTAAATTTAAAAAATTCACATTAACAAATTAAAA
1 AATAAAAAA-AATATTTAATTAAATTTAAAAAATT-ACATTAACAAATTAAAA
3589725 AAATAACATT
Statistics
Matches: 143, Mismatches: 15, Indels: 13
0.84 0.09 0.08
Matches are distributed among these distances:
109 45 0.31
110 34 0.24
112 3 0.02
113 3 0.02
114 30 0.21
115 28 0.20
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (111 bp):
AATAAAAAAAATATTTAATTAAATTTAAAAAATTACATTAACAAATTAAAATATTAATTATTGTT
ATTTAAAAATAAATTAAAAAGGATTTATTATTATTATTTTTAATAA
Found at i:3589719 original size:23 final size:24
Alignment explanation
Indices: 3589693--3589752 Score: 70
Period size: 22 Copynumber: 2.6 Consensus size: 24
3589683 ATCTTTAATT
*
3589693 AAATTTAAAAAATTCACA-TTAAC
1 AAATTTAAAAAATTAACATTTAAC
* *
3589716 AAA-TTAAAAAAATAACATTTAAG
1 AAATTTAAAAAATTAACATTTAAC
*
3589739 AAATTAAAAAAATT
1 AAATTTAAAAAATT
3589753 TATCATTATT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
22 12 0.40
23 10 0.33
24 8 0.27
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (24 bp):
AAATTTAAAAAATTAACATTTAAC
Found at i:3589722 original size:22 final size:23
Alignment explanation
Indices: 3589675--3589751 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 23
3589665 TTAATAAAAT
*
3589675 AAAAAATAATC-TTTAATTAAATTTA
1 AAAAAATAA-CATTTAA-CAAA-TTA
* *
3589700 AAAAATTCACA-TTAACAAATTA
1 AAAAAATAACATTTAACAAATTA
*
3589722 AAAAAATAACATTTAAGAAATTA
1 AAAAAATAACATTTAACAAATTA
3589745 AAAAAAT
1 AAAAAAT
3589752 TTATCATTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
22 12 0.27
23 20 0.45
24 5 0.11
25 7 0.16
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.30
Consensus pattern (23 bp):
AAAAAATAACATTTAACAAATTA
Found at i:3589760 original size:47 final size:47
Alignment explanation
Indices: 3589671--3589773 Score: 115
Period size: 47 Copynumber: 2.2 Consensus size: 47
3589661 ATTTTTAATA
* *
3589671 AAAT-AAAAAATAATCTTTAATTAAATTTAAAAAATTCACATTA-AC
1 AAATAAAAAAATAATCTTTAATGAAATTAAAAAAATTCACATTATAC
* *
3589716 AAATTAAAAAAATAA-CATTTAA-GAAATTAAAAAAATTTATCATTATTC
1 AAA-TAAAAAAATAATC-TTTAATGAAATTAAAAAAATTCA-CATTATAC
3589764 AAATAAAAAA
1 AAATAAAAAA
3589774 TCCTCTATTT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
45 3 0.06
46 16 0.33
47 26 0.53
48 4 0.08
ACGTcount: A:0.61, C:0.07, G:0.01, T:0.31
Consensus pattern (47 bp):
AAATAAAAAAATAATCTTTAATGAAATTAAAAAAATTCACATTATAC
Found at i:3590237 original size:122 final size:120
Alignment explanation
Indices: 3590046--3590402 Score: 397
Period size: 122 Copynumber: 2.9 Consensus size: 120
3590036 AAAAAATATT
* *
3590046 ATTATAATAAAAACTTTTTTAATTTAAATTTTTTTATTTT-TAAAAAC--ATA-TTAATATTTTA
1 ATTATAATAAAAACCTTTTTATTTTAAATTTTTTT-TTTTATAAAAACATATATTTAA-ATTTTA
* *
3590107 ATTTGTTAATGTAAAATTTTAAACTTAATTAAATATTATTTTTTATTTTATT-AAAA
64 ATTTGTTAATATAAATTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAA
*
3590163 ATTATAATAAAAAGCCTTTATATTTTAAATTTTTTATTTTTATAAAAACATAATATTTAAATTTT
1 ATTATAATAAAAA-CCTTTTTATTTTAAATTTTTT-TTTTTATAAAAACAT-ATATTTAAATTTT
* *
3590228 AATTTGTTAATATAATTTTTTAAACTTAATTAAATATTATTTTTAATTTTATTAAAAA
63 AATTTGTTAATATAAATTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAA
* * * *
3590286 ATAATAATAATAAACCCTTTTTATTTT-TATTTAAAATTTTTTATTATTAAAAA-ATA-ATTGAT
1 ATTATAATAA-AAA-CCTTTTTATTTTAAATTT----TTTTTT-TTA-TAAAAACATATATTTAA
* * *
3590348 ATTTTAATTTATTAACATAAATTTCTTTAAAGTTAATTAAATATTATTTTTTATT
58 ATTTTAATTTGTTAATATAAA-TT-TTTAAACTTAATTAAATATTATTTTTTATT
3590403 AAAAATAATA
Statistics
Matches: 205, Mismatches: 18, Indels: 24
0.83 0.07 0.10
Matches are distributed among these distances:
117 13 0.06
118 22 0.11
119 8 0.04
122 57 0.28
123 21 0.10
124 14 0.07
125 22 0.11
126 6 0.03
127 36 0.18
128 6 0.03
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (120 bp):
ATTATAATAAAAACCTTTTTATTTTAAATTTTTTTTTTTATAAAAACATATATTTAAATTTTAAT
TTGTTAATATAAATTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAA
Found at i:3591003 original size:21 final size:22
Alignment explanation
Indices: 3590957--3591006 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
3590947 ATTATTACTT
***
3590957 TTTATTTATAAATTAATTTTAA
1 TTTATTTATAAATTAATACAAA
3590979 TTTATTTATAAATT-ATACAAA
1 TTTATTTATAAATTAATACAAA
3591000 TTTATTT
1 TTTATTT
3591007 TTATTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 11 0.44
22 14 0.56
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
TTTATTTATAAATTAATACAAA
Found at i:3594633 original size:92 final size:92
Alignment explanation
Indices: 3594524--3594692 Score: 230
Period size: 92 Copynumber: 1.8 Consensus size: 92
3594514 ACTGTGATAT
** * * * *
3594524 TTATAATCAATTAACTTTTCAGCTTTTCTATCAAAAGGAATCTGATTCTCAAATATAATTTATGC
1 TTATAATCAACAAACTTTTCAGCTTTTCTACCAAAAGAAATCTGATTCTCAAATACAATTCATGC
3594589 ATTAGTCTAATCTTTGCAGTGTCATAC
66 ATTAGTCTAATCTTTGCAGTGTCATAC
*** * **
3594616 TTATAATCAACAAACTTTTCTTTTTTTTTACCAAAAGAAATCTGATTCTCATGTACAATTCATGC
1 TTATAATCAACAAACTTTTCAGCTTTTCTACCAAAAGAAATCTGATTCTCAAATACAATTCATGC
3594681 ATTAGTCTAATC
66 ATTAGTCTAATC
3594693 CTTGTAGCTT
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
92 65 1.00
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.41
Consensus pattern (92 bp):
TTATAATCAACAAACTTTTCAGCTTTTCTACCAAAAGAAATCTGATTCTCAAATACAATTCATGC
ATTAGTCTAATCTTTGCAGTGTCATAC
Found at i:3594787 original size:68 final size:68
Alignment explanation
Indices: 3594648--3594907 Score: 362
Period size: 68 Copynumber: 3.8 Consensus size: 68
3594638 TTTTTTTACC
* * *
3594648 AAAAGAAATCTGATTCTCATG-TACAATTCATGCATTAGTCTAATCCTTGTAG-CTTTTTTTTCC
1 AAAAG-AATCTGATTCTCA-GATATAATTCATGCATTAGTCTAATCCTTGCAGTCTTTTTTTTCT
*
3594711 TACAA
64 TATAA
* *
3594716 AAAAGAATCTGATTTTTAGATATAATTCATGCATTAGTCTAATCCTTGCAGTCTTTTTTTTCTTA
1 AAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGTCTTTTTTTTCTTA
3594781 TAA
66 TAA
* * *
3594784 AAAAGAATCTGATTCTCAGATATAATTCATGTATTAGTCTAATCCTTGCAGTTTTTCTTTTTTTC
1 AAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGTCTTT-TTTTTCT-
3594849 TATAA
64 TATAA
** *
3594854 AAAAGAATCCAATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGTAGTCT
1 AAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGTCT
3594908 GACATTTACA
Statistics
Matches: 172, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
66 1 0.01
67 40 0.23
68 71 0.41
69 6 0.03
70 54 0.31
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (68 bp):
AAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGTCTTTTTTTTCTTA
TAA
Found at i:3594891 original size:138 final size:136
Alignment explanation
Indices: 3594648--3594907 Score: 371
Period size: 138 Copynumber: 1.9 Consensus size: 136
3594638 TTTTTTTACC
*
3594648 AAAAGAAATCTGATTCTCATGTACAATTCATGCATTAGTCTAATCCTTGTAGCTTTTTTTTCCTA
1 AAAAGAAATCTGATTCTCATGTACAATTCATGCATTAGTCTAATCCTTGCAGCTTTTTTTTCCTA
** * *
3594713 CAAAAAAGAATCTGATTTTTAGATATAATTCATGCATTAGTCTAATCCTTGCAGTCTTTTTTTTC
66 CAAAAAAGAATCCAATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGTCTTTTTTTTC
3594778 TTATAA
131 TTATAA
* * *
3594784 AAAAG-AATCTGATTCTCA-GATATAATTCATGTATTAGTCTAATCCTTGCAGTTTTTCTTTTTT
1 AAAAGAAATCTGATTCTCATG-TACAATTCATGCATTAGTCTAATCCTTGCAG--CTT-TTTTTT
* * *
3594847 TCTATAAAAAAGAATCCAATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGTAGTCT
62 CCTACAAAAAAGAATCCAATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGTCT
3594908 GACATTTACA
Statistics
Matches: 109, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
134 1 0.01
135 41 0.38
136 5 0.05
137 2 0.02
138 60 0.55
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (136 bp):
AAAAGAAATCTGATTCTCATGTACAATTCATGCATTAGTCTAATCCTTGCAGCTTTTTTTTCCTA
CAAAAAAGAATCCAATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGTCTTTTTTTTC
TTATAA
Found at i:3594979 original size:87 final size:87
Alignment explanation
Indices: 3594840--3595453 Score: 822
Period size: 92 Copynumber: 6.9 Consensus size: 87
3594830 TGCAGTTTTT
** *
3594840 CTTTTTTTCTATAAAAAAGAATCCAATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGTAG
1 CTTTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAG
*
3594905 TCTGACATTTACAATCAGTTAA
66 TCTGACATTTACAATCAGTCAA
* * *
3594927 CTTTTTTTCTATAAAAAAGAATTTGATTCTCAGATATAATTCATGCATTAGTCTAATCATTGCAA
1 CTTTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAG
*
3594992 TTTGACATTTACAATCAGTCAA
66 TCTGACATTTACAATCAGTCAA
* * *
3595014 CTTTTTTTCTATAAAAAAGAATCCGATTCTTAGATATAATTAATGCATTAGTCTAATCCTTGCAG
1 CTTTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAG
* *
3595079 TCTGACATTTACAATCAATCAGG
66 TCTGACATTTACAATCAGTCA-A
*
3595102 CTTTCTTTTTTTTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTG
1 C--T-TTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTG
*
3595167 CAGTTTGACATTTACAATCAGTCAA
63 CAGTCTGACATTTACAATCAGTCAA
* * * * *
3595192 ---TTTTTCGATAAAAACA-CATCTGATTCTCAGATGTAATTCATTCATTAGTCTAATCTTTGCA
1 CTTTTTTTCTATAAAAA-AGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCA
*
3595253 GTCTAACATTTACAATCAGTCAA
65 GTCTGACATTTACAATCAGTCAA
* *
3595276 CTTTTCTTTTTTTCTATAAAAAAGAATTTAATTCTCAGATATAATTCATGCATTAGTCTAATCCT
1 -----CTTTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCT
*
3595341 TGCAGTCTAACATTTACAATCAGTCAA
61 TGCAGTCTGACATTTACAATCAGTCAA
* *
3595368 CTTTTCTTTTTTTCTATAAAAAAGAATTTAATTCTCAGATATAATTCATGCATTAGTCTAATCCT
1 -----CTTTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCT
*
3595433 TGCAGTCTAACATTTACAATC
61 TGCAGTCTGACATTTACAATC
3595454 GATTCTCAAA
Statistics
Matches: 474, Mismatches: 39, Indels: 23
0.88 0.07 0.04
Matches are distributed among these distances:
84 74 0.16
85 1 0.00
87 157 0.33
88 1 0.00
90 1 0.00
91 79 0.17
92 161 0.34
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.40
Consensus pattern (87 bp):
CTTTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAG
TCTGACATTTACAATCAGTCAA
Found at i:3595356 original size:267 final size:264
Alignment explanation
Indices: 3594836--3595692 Score: 961
Period size: 267 Copynumber: 3.3 Consensus size: 264
3594826 TCCTTGCAGT
*
3594836 TTTTCTTTTTTTCTATAAAAAAGAATCCAATTCTCAGATATAATTCATGCATTAGTCTAATCCTT
1 TTTTCTTTTTTTCTATAAAAAAGAATCTAATTCTCAGATATAATTCATGCATTAGTCTAATCCTT
* * * *
3594901 GTAGTCTGACATTTACAATCAGTTAACTTTTTTTCTATAAAAAAGAATTTGATTCTCAGATATAA
66 GCAGTCTGACATTTACAATCAGTCAA--TTTTTTCGATAAAAAAGAATCTGATTCTCAGATATAA
* *
3594966 TTCATGCATTAGTCTAATCATTGCAATTTGACATTTACAATCAGTCAACTTTTTTTCTATAAAAA
129 TTCATGCATTAGTCTAATCATTGCAATCTAACATTTACAATCAGTCAACTTTTTTTCTATAAAAA
* * *
3595031 AGAATCCGATTCTTAGATATAATTAATGCATTAGTCTAATCCTTGCAGTCTGACATTTACAATCA
194 AGAATCCAATTCTCAGATATAATTAATGCATTAGTCTAATCCTTGCAGTCTAACATTTACAATCA
*
3595096 ATCAGGC
259 ATCA-AC
*
3595103 -TTTCTTTTTTT-TATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTT
1 TTTTCTTTTTTTCTATAAAAAAGAATCTAATTCTCAGATATAATTCATGCATTAGTCTAATCCTT
* * *
3595166 GCAGTTTGACATTTACAATCAGTCAA-TTTTTCGATAAAAACA-CATCTGATTCTCAGATGTAAT
66 GCAGTCTGACATTTACAATCAGTCAATTTTTTCGATAAAAA-AGAATCTGATTCTCAGATATAAT
* * *
3595229 TCATTCATTAGTCTAATCTTTGCAGTCTAACATTTACAATCAGTCAACTTTTCTTTTTTTCTATA
130 TCATGCATTAGTCTAATCATTGCAATCTAACATTTACAATCAGTCAA-----CTTTTTTTCTATA
** *
3595294 AAAAAGAATTTAATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGTCTAACATTTACA
190 AAAAAGAATCCAATTCTCAGATATAATTAATGCATTAGTCTAATCCTTGCAGTCTAACATTTACA
*
3595359 ATCAGTCAAC
255 ATCAATCAAC
*
3595369 TTTTCTTTTTTTCTATAAAAAAGAATTTAATTCTCAGATATAATTCATGCATTAGTCTAATCCTT
1 TTTTCTTTTTTTCTATAAAAAAGAATCTAATTCTCAGATATAATTCATGCATTAGTCTAATCCTT
* * * * * *
3595434 GCAGTCTAACATTTACAATC-G---A--TTCTC-A-AATATA-ATTCATGCA-T-T-AG-TCTAA
66 GCAGTCTGACATTTACAATCAGTCAATTTTTTCGATAAAAAAGAATC-TG-ATTCTCAGATATAA
** * * * **
3595486 -TC-TTTA-CAGTCTGA-CATTTACAATC--A-A--T-CAA-CTTTTC--CTTTTTTTCTATAAA
129 TTCATGCATTAGTCTAATCA-TTGCAATCTAACATTTACAATC-AGTCAACTTTTTTTCTATAAA
** * * *
3595538 AAAGAAT-TGATT-TCAGATATAATTCATTCATTAGTCTAATCTTTGCAGTCTAACATTTACAAT
192 AAAGAATCCAATTCTCAGATATAATTAATGCATTAGTCTAATCCTTGCAGTCTAACATTTACAAT
*
3595601 CAGTCAAC
257 CAATCAAC
* *
3595609 TTTTC-TTTTTTCTATAAAAAAGAATTTAATTCTCAGATATAATTCATGCATTAGTCTAATCTTT
1 TTTTCTTTTTTTCTATAAAAAAGAATCTAATTCTCAGATATAATTCATGCATTAGTCTAATCCTT
*
3595673 GCAGTCTAACATTTACAATC
66 GCAGTCTGACATTTACAATC
3595693 GATTCTCAAA
Statistics
Matches: 534, Mismatches: 44, Indels: 52
0.85 0.07 0.08
Matches are distributed among these distances:
239 78 0.15
240 62 0.12
241 4 0.01
242 22 0.04
248 1 0.00
249 5 0.01
250 1 0.00
252 1 0.00
253 1 0.00
254 1 0.00
255 12 0.02
256 3 0.01
257 2 0.00
258 4 0.01
259 2 0.00
260 4 0.01
261 6 0.01
262 75 0.14
263 5 0.01
264 1 0.00
265 73 0.14
266 12 0.02
267 91 0.17
268 68 0.13
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.41
Consensus pattern (264 bp):
TTTTCTTTTTTTCTATAAAAAAGAATCTAATTCTCAGATATAATTCATGCATTAGTCTAATCCTT
GCAGTCTGACATTTACAATCAGTCAATTTTTTCGATAAAAAAGAATCTGATTCTCAGATATAATT
CATGCATTAGTCTAATCATTGCAATCTAACATTTACAATCAGTCAACTTTTTTTCTATAAAAAAG
AATCCAATTCTCAGATATAATTAATGCATTAGTCTAATCCTTGCAGTCTAACATTTACAATCAAT
CAAC
Found at i:3595486 original size:57 final size:57
Alignment explanation
Indices: 3595398--3595510 Score: 190
Period size: 57 Copynumber: 2.0 Consensus size: 57
3595388 AAAGAATTTA
* *
3595398 ATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGTCTAACATTTACAATCG
1 ATTCTCAAATATAATTCATGCATTAGTCTAATCCTTACAGTCTAACATTTACAATCG
* *
3595455 ATTCTCAAATATAATTCATGCATTAGTCTAATCTTTACAGTCTGACATTTACAATC
1 ATTCTCAAATATAATTCATGCATTAGTCTAATCCTTACAGTCTAACATTTACAATC
3595511 AATCAACTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.38
Consensus pattern (57 bp):
ATTCTCAAATATAATTCATGCATTAGTCTAATCCTTACAGTCTAACATTTACAATCG
Found at i:3595619 original size:91 final size:91
Alignment explanation
Indices: 3595454--3595692 Score: 392
Period size: 91 Copynumber: 2.6 Consensus size: 91
3595444 ATTTACAATC
* * *
3595454 GATTCTCAAATATAATTCATGCATTAGTCTAATCTTTACAGTCTGACATTTACAATCAATCAACT
1 GATTCTCAGATATAATTCATGCATTAGTCTAATCTTTGCAGTCTAACATTTACAATCAATCAACT
3595519 TTTCCTTTTTTTCTATAAAAAAGAA-TT
66 TTT-C-TTTTTTCTATAAAAAAGAATTT
* *
3595546 GATT-TCAGATATAATTCATTCATTAGTCTAATCTTTGCAGTCTAACATTTACAATCAGTCAACT
1 GATTCTCAGATATAATTCATGCATTAGTCTAATCTTTGCAGTCTAACATTTACAATCAATCAACT
3595610 TTTCTTTTTTCTATAAAAAAGAATTT
66 TTTCTTTTTTCTATAAAAAAGAATTT
*
3595636 AATTCTCAGATATAATTCATGCATTAGTCTAATCTTTGCAGTCTAACATTTACAATC
1 GATTCTCAGATATAATTCATGCATTAGTCTAATCTTTGCAGTCTAACATTTACAATC
3595693 GATTCTCAAA
Statistics
Matches: 138, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
89 19 0.14
90 6 0.04
91 109 0.79
92 4 0.03
ACGTcount: A:0.34, C:0.17, G:0.08, T:0.41
Consensus pattern (91 bp):
GATTCTCAGATATAATTCATGCATTAGTCTAATCTTTGCAGTCTAACATTTACAATCAATCAACT
TTTCTTTTTTCTATAAAAAAGAATTT
Found at i:3595682 original size:239 final size:240
Alignment explanation
Indices: 3595213--3595852 Score: 1077
Period size: 239 Copynumber: 2.7 Consensus size: 240
3595203 AAACACATCT
* * * * * *
3595213 GATTCTCAGATGTAATTCATTCATTAGTCTAATCTTTGCAGTCTAACATTTACAATCAGTCAACT
1 GATTCTCAAATATAATTCATACATTAGTCTAATCTTTACAGTCTGACATTTACAATCAATCAACT
*
3595278 TTTCTTTTTTTCTATAAAAAAGAATTTAATTCTCAGATATAATTCATGCATTAGTCTAATCCTTG
66 TTTCTTTTTTTCTATAAAAAAGAA-TTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTG
3595343 CAGTCTAACATTTACAATCAGTCAACTTTTCTTTTTTTCTATAAAAAAGAATTTAATTCTCAGAT
130 CAGTCTAACATTTACAATCAGTCAACTTTTCTTTTTTTCTATAAAAAAGAATTTAATTCTCAGAT
3595408 ATAATTCATGCATTAGTCTAATCCTTGCAGTCTAACATTTACAATC
195 ATAATTCATGCATTAGTCTAATCCTTGCAGTCTAACATTTACAATC
*
3595454 GATTCTCAAATATAATTCATGCATTAGTCTAATCTTTACAGTCTGACATTTACAATCAATCAACT
1 GATTCTCAAATATAATTCATACATTAGTCTAATCTTTACAGTCTGACATTTACAATCAATCAACT
* *
3595519 TTTCCTTTTTTTCTATAAAAAAGAATTGATT-TCAGATATAATTCATTCATTAGTCTAATCTTTG
66 TTT-CTTTTTTTCTATAAAAAAGAATTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTG
3595583 CAGTCTAACATTTACAATCAGTCAACTTTTC-TTTTTTCTATAAAAAAGAATTTAATTCTCAGAT
130 CAGTCTAACATTTACAATCAGTCAACTTTTCTTTTTTTCTATAAAAAAGAATTTAATTCTCAGAT
*
3595647 ATAATTCATGCATTAGTCTAATCTTTGCAGTCTAACATTTACAATC
195 ATAATTCATGCATTAGTCTAATCCTTGCAGTCTAACATTTACAATC
*
3595693 GATTCTCAAATATAATTCACACATTAGTCTAATCTTTACAGTCTGACATTTACAATCAATCAACT
1 GATTCTCAAATATAATTCATACATTAGTCTAATCTTTACAGTCTGACATTTACAATCAATCAAC-
* * *
3595758 TTTTCTTTTTTTCTATAAAAAAGAATTGATTCTCAGATATAATTCATGCATTAATATAATCCTTA
65 TTTTCTTTTTTTCTATAAAAAAGAATTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTG
* * *
3595823 CAGTTTGACATTTACAATCAATCAACTTTT
130 CAGTCTAACATTTACAATCAGTCAACTTTT
3595853 TTTCATAAAA
Statistics
Matches: 376, Mismatches: 20, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
239 167 0.44
240 121 0.32
241 67 0.18
242 21 0.06
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.41
Consensus pattern (240 bp):
GATTCTCAAATATAATTCATACATTAGTCTAATCTTTACAGTCTGACATTTACAATCAATCAACT
TTTCTTTTTTTCTATAAAAAAGAATTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGC
AGTCTAACATTTACAATCAGTCAACTTTTCTTTTTTTCTATAAAAAAGAATTTAATTCTCAGATA
TAATTCATGCATTAGTCTAATCCTTGCAGTCTAACATTTACAATC
Found at i:3595707 original size:57 final size:57
Alignment explanation
Indices: 3595637--3595749 Score: 181
Period size: 57 Copynumber: 2.0 Consensus size: 57
3595627 AAAGAATTTA
* ** *
3595637 ATTCTCAGATATAATTCATGCATTAGTCTAATCTTTGCAGTCTAACATTTACAATCG
1 ATTCTCAAATATAATTCACACATTAGTCTAATCTTTACAGTCTAACATTTACAATCG
*
3595694 ATTCTCAAATATAATTCACACATTAGTCTAATCTTTACAGTCTGACATTTACAATC
1 ATTCTCAAATATAATTCACACATTAGTCTAATCTTTACAGTCTAACATTTACAATC
3595750 AATCAACTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.38
Consensus pattern (57 bp):
ATTCTCAAATATAATTCACACATTAGTCTAATCTTTACAGTCTAACATTTACAATCG
Found at i:3595708 original size:148 final size:148
Alignment explanation
Indices: 3595546--3595841 Score: 443
Period size: 149 Copynumber: 2.0 Consensus size: 148
3595536 AAAAAGAATT
* ** * *
3595546 GATTTCAGATATAATTCATTCATTAGTCTAATCTTTGCAGTCTAACATTTACAATCAGTCAAC-T
1 GATTTCAAATATAATTCACACATTAGTCTAATCTTTACAGTCTAACATTTACAATCAATCAACTT
* * * *
3595610 TTTC-TTTTTTCTATAAAAAAGAATTTAATTCTCAGATATAATTCATGCATTAGTCTAATCTTTG
66 TTTCTTTTTTTCTATAAAAAAGAA-TTAATTCTCAGATATAATTCATGCATTAATATAATCCTTA
3595674 CAGTCTAACATTTACAATC
130 CAGTCTAACATTTACAATC
*
3595693 GATTCTCAAATATAATTCACACATTAGTCTAATCTTTACAGTCTGACATTTACAATCAATCAACT
1 GATT-TCAAATATAATTCACACATTAGTCTAATCTTTACAGTCTAACATTTACAATCAATCAACT
*
3595758 TTTTCTTTTTTTCTATAAAAAAGAATTGATTCTCAGATATAATTCATGCATTAATATAATCCTTA
65 TTTTCTTTTTTTCTATAAAAAAGAATTAATTCTCAGATATAATTCATGCATTAATATAATCCTTA
* *
3595823 CAGTTTGACATTTACAATC
130 CAGTCTAACATTTACAATC
3595842 AATCAACTTT
Statistics
Matches: 133, Mismatches: 13, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
147 4 0.03
148 53 0.40
149 57 0.43
150 19 0.14
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.41
Consensus pattern (148 bp):
GATTTCAAATATAATTCACACATTAGTCTAATCTTTACAGTCTAACATTTACAATCAATCAACTT
TTTCTTTTTTTCTATAAAAAAGAATTAATTCTCAGATATAATTCATGCATTAATATAATCCTTAC
AGTCTAACATTTACAATC
Found at i:3595791 original size:331 final size:331
Alignment explanation
Indices: 3595059--3595885 Score: 922
Period size: 331 Copynumber: 2.5 Consensus size: 331
3595049 ATAATTAATG
* * *
3595059 CATTAGTCTAATCCTTGCAGTCTGACATTTACAATCAATCAGGC--TTTCTTTTTTT-TATAAAA
1 CATTAGTCTAATCTTTACAGTCTGACATTTACAATCAATCA-ACTTTTTCTTTTTTTCTATAAAA
*
3595121 AAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGTTTGACATTTACAATC
65 AAGAAT-TGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTACAGTTTGACATTTACAATC
* * *
3595186 AGTCAA-----TTTTTCGATAAAAACACATCTGATTCTCAGATGTAATTCATTCATTAGTCTAAT
129 AATCAACTTTTTTTTTCGATAAAAACAAATCTGATTCTCAGATATAATTCATTCATTAGTCTAAT
3595246 CTTTGCAGTCTAACATTTACAATCAGTCAACTTTTCTTTTTTTCTATAAAAAAGAATTTAATTCT
194 CTTTGCAGTCTAACATTTACAATCAGTCAACTTTTCTTTTTTTCTATAAAAAAGAATTTAATTCT
* *
3595311 CAGATATAATTCATGCATTAGTCTAATCCTTGCAGTCTAACATTTACAATCAGTCAACTTTTCTT
259 CAGATATAATTCATGCATTAGTCTAATCCTTGCAGTCTAACATTTACAATCAG--AACTTCTCTA
** *
3595376 TTTTTCTATA
322 TAATTCTACA
* ** * * * * * ** ** * *
3595386 AAAAAG---AA--TTTA-ATTCTCAGATATA-ATTC-ATGC-A-TTAGTCTAATCCTTGCAGTCT
1 CATTAGTCTAATCTTTACAGTCTGACATTTACAATCAAT-CAACTTTTTCT--TTTTTTC--TAT
** * * * * *
3595441 AACATTTACAATCGATTCTCAAATATAATTCATGCATTAGTCTAATCTTTACAGTCTGACATTTA
61 AA-A-AAAGAATTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTACAGTTTGACATTTA
*
3595506 CAATCAATCAACTTTTCCTTTTTTTCTATAAAAA-AGAAT-TGATT-TCAGATATAATTCATTCA
124 CAATCAATCAAC--TT--TTTTTTTCGATAAAAACA-AATCTGATTCTCAGATATAATTCATTCA
3595568 TTAGTCTAATCTTTGCAGTCTAACATTTACAATCAGTCAACTTTTC-TTTTTTCTATAAAAAAGA
184 TTAGTCTAATCTTTGCAGTCTAACATTTACAATCAGTCAACTTTTCTTTTTTTCTATAAAAAAGA
*
3595632 ATTTAATTCTCAGATATAATTCATGCATTAGTCTAATCTTTGCAGTCTAACATTTACAATC-G-A
249 ATTTAATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGTCTAACATTTACAATCAGAA
3595695 -TTCTCAAATATAATTC-ACA
314 CTTCTC---TATAATTCTACA
3595714 CATTAGTCTAATCTTTACAGTCTGACATTTACAATCAATCAACTTTTTCTTTTTTTCTATAAAAA
1 CATTAGTCTAATCTTTACAGTCTGACATTTACAATCAATCAACTTTTTCTTTTTTTCTATAAAAA
* *
3595779 AGAATTGATTCTCAGATATAATTCATGCATTAATATAATCCTTACAGTTTGACATTTACAATCAA
66 AGAATTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTACAGTTTGACATTTACAATCAA
* *
3595844 TCAAC--TTTTTTTC-ATAAAAA-AAATCTGATTTTAAGATATAAT
131 TCAACTTTTTTTTTCGATAAAAACAAATCTGATTCTCAGATATAAT
3595886 CACATTTATT
Statistics
Matches: 406, Mismatches: 59, Indels: 72
0.76 0.11 0.13
Matches are distributed among these distances:
319 5 0.01
320 4 0.01
321 12 0.03
322 2 0.00
323 3 0.01
324 19 0.05
325 77 0.19
326 8 0.02
327 4 0.01
328 5 0.01
329 5 0.01
330 1 0.00
331 143 0.35
332 64 0.16
333 14 0.03
334 24 0.06
335 8 0.02
336 3 0.01
337 5 0.01
ACGTcount: A:0.34, C:0.17, G:0.08, T:0.41
Consensus pattern (331 bp):
CATTAGTCTAATCTTTACAGTCTGACATTTACAATCAATCAACTTTTTCTTTTTTTCTATAAAAA
AGAATTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTACAGTTTGACATTTACAATCAA
TCAACTTTTTTTTTCGATAAAAACAAATCTGATTCTCAGATATAATTCATTCATTAGTCTAATCT
TTGCAGTCTAACATTTACAATCAGTCAACTTTTCTTTTTTTCTATAAAAAAGAATTTAATTCTCA
GATATAATTCATGCATTAGTCTAATCCTTGCAGTCTAACATTTACAATCAGAACTTCTCTATAAT
TCTACA
Found at i:3596707 original size:123 final size:122
Alignment explanation
Indices: 3596437--3596779 Score: 428
Period size: 123 Copynumber: 2.8 Consensus size: 122
3596427 ATTTATAATA
* *
3596437 AAAAATAACATTTAATTAACTTTAAAGAAATTTATATTAACAAATTAAAATATTAATTA-T--TT
1 AAAAATAATATTTAATTAAGTTTAAA-AAA-TTATATTAACAAATTAAAATATTAATTATTAATT
* *
3596499 TTTAATAATAAAAAAATTTAAATAAAAATAAAAAGGGTTTATTATTATTATTTTTTAATAAAATT
64 TTTAAAAAT-AAAAAATTT---T-AAAATAAAAAGGGTTTATTATTATTAATTTTTAATAAAA-T
* *
3596564 TAAAATAATATTTAATTAAGTTTAAAAAATTACATTAACAAATTAAAAT-TTAATTATTAAGTTT
1 AAAAATAATATTTAATTAAGTTTAAAAAATTATATTAACAAATTAAAATATTAATTATTAA-TTT
*
3596628 TTACAAAAATAAAAAATTTTAAAATAAAAA-GGTTTTTTATTA-TAATTTTTAATAAAAT
65 TT--AAAAATAAAAAATTTTAAAATAAAAAGGGTTTATTATTATTAATTTTTAATAAAAT
* **
3596686 AAAAACTAATATTTAAGTAAGTTTAAAATTTTATATTAACAAATTAAAATATTAATTATTATATT
1 AAAAA-TAATATTTAATTAAGTTTAAAAAATTATATTAACAAATTAAAATATTAATTATTA-ATT
*
3596751 TTTAAAAATAAAAAATTTTAAATTAAAAA
64 TTTAAAAATAAAAAATTTTAAAATAAAAA
3596780 ATTTATTATA
Statistics
Matches: 194, Mismatches: 13, Indels: 23
0.84 0.06 0.10
Matches are distributed among these distances:
122 30 0.15
123 54 0.28
124 33 0.17
125 31 0.16
126 4 0.02
127 23 0.12
128 5 0.03
129 9 0.05
130 5 0.03
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.41
Consensus pattern (122 bp):
AAAAATAATATTTAATTAAGTTTAAAAAATTATATTAACAAATTAAAATATTAATTATTAATTTT
TAAAAATAAAAAATTTTAAAATAAAAAGGGTTTATTATTATTAATTTTTAATAAAAT
Found at i:3596771 original size:16 final size:15
Alignment explanation
Indices: 3596750--3596783 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
3596740 ATTATTATAT
3596750 TTTTAAAAATAAAAAA
1 TTTT-AAAATAAAAAA
*
3596766 TTTTAAATTAAAAAA
1 TTTTAAAATAAAAAA
3596781 TTT
1 TTT
3596784 ATTATAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TTTTAAAATAAAAAA
Found at i:3597110 original size:23 final size:23
Alignment explanation
Indices: 3597084--3597161 Score: 70
Period size: 23 Copynumber: 3.3 Consensus size: 23
3597074 ATAATGATAA
3597084 ATTTTTTTAATTCT-TTAAATATT
1 ATTTTTTTAATT-TATTAAATATT
* * *
3597107 ATTTTTTTAATTTGTT-AATGTAA
1 ATTTTTTTAATTTATTAAATAT-T
*
3597130 ATTTTTTAAATTTTAATTAAATATT
1 ATTTTTTTAA-TTT-ATTAAATATT
3597155 ATTTTTT
1 ATTTTTT
3597162 ATTGTATTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
22 5 0.11
23 23 0.52
24 3 0.07
25 9 0.20
26 4 0.09
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (23 bp):
ATTTTTTTAATTTATTAAATATT
Found at i:3597145 original size:21 final size:21
Alignment explanation
Indices: 3597109--3597151 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
3597099 TAAATATTAT
*
3597109 TTTTTTAATTTGTTAATGTAAA
1 TTTTTTAAATTGTTAAT-TAAA
3597131 TTTTTTAAATT-TTAATTAAA
1 TTTTTTAAATTGTTAATTAAA
3597151 T
1 T
3597152 ATTATTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 5 0.25
22 10 0.50
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (21 bp):
TTTTTTAAATTGTTAATTAAA
Found at i:3597162 original size:47 final size:48
Alignment explanation
Indices: 3597061--3597161 Score: 136
Period size: 48 Copynumber: 2.1 Consensus size: 48
3597051 TTGAATTGAG
*
3597061 TTTTTTT-ATTTGAATAATGATAAATTTTTTTAATTCTTTAAATATTA
1 TTTTTTTAATTTGAATAATGATAAATTTTTTAAATTCTTTAAATATTA
* *
3597108 TTTTTTTAATTTG-TTAATG-TAAATTTTTTAAATTTTAATTAAATATTA
1 TTTTTTTAATTTGAATAATGATAAATTTTTTAAATTCT--TTAAATATTA
3597156 TTTTTT
1 TTTTTT
3597162 ATTGTATTAA
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
46 15 0.31
47 12 0.25
48 21 0.44
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (48 bp):
TTTTTTTAATTTGAATAATGATAAATTTTTTAAATTCTTTAAATATTA
Found at i:3597233 original size:110 final size:116
Alignment explanation
Indices: 3597111--3597388 Score: 330
Period size: 110 Copynumber: 2.5 Consensus size: 116
3597101 AATATTATTT
3597111 TTTTAATTTGTTAATGTAAATTTTTTAAATTTTAATTAAATATTATTTTTTATTGTATT-AAAAA
1 TTTTAATTTGTTAATGTAAATTTTTTAAA-TTTAATTAAATATTATTTTTTATTGTATTAAAAAA
* *
3597175 TAATAATAA-AA-ATA-CTTTTT-A-TT-TTTATAA-AAACATATAATTAATA
65 TAATAATAATAATAAACCTTTTTAATTTATTTATAATAAA-AAATAATTAATA
* *
3597221 TTTTAATTTGTTAATGT--ATTTTTTAAATTTAATT-AATATTA-TTTTAATTTTATTAAAAAAT
1 TTTTAATTTGTTAATGTAAATTTTTTAAATTTAATTAAATATTATTTTTTATTGTATTAAAAAAT
*
3597282 AATAATAATAATAAACCCTTTTTAATTTAATTTTTAATTTAAAAAATAATTAATA
66 AATAATAATAATAAA-CCTTTTTAATTT-ATTTATAA--TAAAAAATAATTAATA
* * * *
3597337 TTTTAA-TTATTAATGTAAATTTTTAAAAATTAATTAAAAATTATTTTTTATT
1 TTTTAATTTGTTAATGTAAATTTTTTAAATTTAATTAAATATTATTTTTTATT
3597389 AAAAATAATT
Statistics
Matches: 142, Mismatches: 10, Indels: 23
0.81 0.06 0.13
Matches are distributed among these distances:
105 11 0.08
106 21 0.15
107 9 0.06
108 12 0.08
110 23 0.16
111 1 0.01
112 2 0.01
114 6 0.04
115 9 0.06
116 17 0.12
117 18 0.13
118 6 0.04
119 7 0.05
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (116 bp):
TTTTAATTTGTTAATGTAAATTTTTTAAATTTAATTAAATATTATTTTTTATTGTATTAAAAAAT
AATAATAATAATAAACCTTTTTAATTTATTTATAATAAAAAATAATTAATA
Found at i:3597260 original size:20 final size:20
Alignment explanation
Indices: 3597219--3597276 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
3597209 ATATAATTAA
*
3597219 TATTTTAATTT-GTTAATGTAT
1 TATTTTAATTTAATTAA--TAT
3597240 T-TTTTAAATTTAATTAATAT
1 TATTTT-AATTTAATTAATAT
*
3597260 TATTTTAATTTTATTAA
1 TATTTTAATTTAATTAA
3597277 AAAATAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
20 18 0.56
21 10 0.31
22 4 0.12
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
TATTTTAATTTAATTAATAT
Found at i:3597368 original size:20 final size:20
Alignment explanation
Indices: 3597319--3597374 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
3597309 TAATTTTTAA
*
3597319 TTTAAAAAATAATT-AATAT
1 TTTAAAAATTAATTAAATAT
**
3597338 TTTAATTATTAATGTAAAT-T
1 TTTAAAAATTAAT-TAAATAT
3597358 TTTAAAAATTAATTAAA
1 TTTAAAAATTAATTAAA
3597375 AATTATTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
19 14 0.47
20 13 0.43
21 3 0.10
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
TTTAAAAATTAATTAAATAT
Found at i:3597407 original size:28 final size:28
Alignment explanation
Indices: 3597356--3597419 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
3597346 TTAATGTAAA
3597356 TTTTTAAAAATTAATTAAAAATTATT-T
1 TTTTTAAAAATTAATTAAAAATTATTAT
*
3597383 TTTATTAAAAA-TAATTAATATATTATTAT
1 TTT-TTAAAAATTAATTAA-AAATTATTAT
3597412 TTTTTAAA
1 TTTTTAAA
3597420 TTTTTTAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
27 10 0.30
28 19 0.58
29 4 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
TTTTTAAAAATTAATTAAAAATTATTAT
Found at i:3600242 original size:25 final size:25
Alignment explanation
Indices: 3600214--3600261 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
3600204 TAATAAAAAT
* *
3600214 ATAT-ATTTTGTATTATAATTTAATA
1 ATATGATTTT-TAATATAAATTAATA
3600239 ATATGATTTTTAATATAAATTAA
1 ATATGATTTTTAATATAAATTAA
3600262 AAAGATTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (25 bp):
ATATGATTTTTAATATAAATTAATA
Found at i:3600310 original size:13 final size:14
Alignment explanation
Indices: 3600286--3600316 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
3600276 AAACCTCTAC
3600286 ATTTACAAAAATAT
1 ATTTACAAAAATAT
3600300 ATTTA-AAAAATAT
1 ATTTACAAAAATAT
3600313 ATTT
1 ATTT
3600317 TTTAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (14 bp):
ATTTACAAAAATAT
Found at i:3600428 original size:14 final size:14
Alignment explanation
Indices: 3600401--3600447 Score: 60
Period size: 13 Copynumber: 3.4 Consensus size: 14
3600391 TAAATTTTTA
3600401 AATTTAATTTAAATT
1 AATTTAA-TTAAATT
*
3600416 GATTTAATTAAA-T
1 AATTTAATTAAATT
*
3600429 AATTTAATTTAATT
1 AATTTAATTAAATT
3600443 AATTT
1 AATTT
3600448 TTTAACCACC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 11 0.39
14 11 0.39
15 6 0.21
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (14 bp):
AATTTAATTAAATT
Found at i:3600574 original size:5 final size:5
Alignment explanation
Indices: 3600564--3600588 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
3600554 CATAGGCGCG
3600564 ACGCA ACGCA ACGCA ACGCA ACGCA
1 ACGCA ACGCA ACGCA ACGCA ACGCA
3600589 TGATCACATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.40, G:0.20, T:0.00
Consensus pattern (5 bp):
ACGCA
Found at i:3601121 original size:6 final size:6
Alignment explanation
Indices: 3601110--3601151 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
3601100 GTTTTATTTC
* * *
3601110 ATATAT ATATAT ATATAT ATATGT ATATAT GTATAT GTATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
3601152 CACTTTGTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (6 bp):
ATATAT
Found at i:3601123 original size:8 final size:8
Alignment explanation
Indices: 3601110--3601151 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
3601100 GTTTTATTTC
3601110 ATATATAT
1 ATATATAT
3601118 ATATATAT
1 ATATATAT
*
3601126 ATATATGT
1 ATATATAT
*
3601134 ATATATGT
1 ATATATAT
*
3601142 ATATGTAT
1 ATATATAT
3601150 AT
1 AT
3601152 CACTTTGTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (8 bp):
ATATATAT
Found at i:3601129 original size:14 final size:14
Alignment explanation
Indices: 3601110--3601151 Score: 66
Period size: 14 Copynumber: 3.0 Consensus size: 14
3601100 GTTTTATTTC
*
3601110 ATATATATATATAT
1 ATATATATGTATAT
3601124 ATATATATGTATAT
1 ATATATATGTATAT
*
3601138 ATGTATATGTATAT
1 ATATATATGTATAT
3601152 CACTTTGTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
ATATATATGTATAT
Found at i:3601393 original size:3 final size:3
Alignment explanation
Indices: 3601381--3601420 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
3601371 GATGATGATG
* * *
3601381 ATA ATG ATA ATA ATG ATA CTA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
3601421 AGGTCAAAGA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:3601398 original size:9 final size:9
Alignment explanation
Indices: 3601375--3601420 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
3601365 AACGATGATG
*
3601375 ATGATGATA
1 ATGATAATA
3601384 ATGATAATA
1 ATGATAATA
*
3601393 ATGATACTA
1 ATGATAATA
*
3601402 ATAATAATA
1 ATGATAATA
*
3601411 ATAATAATA
1 ATGATAATA
3601420 A
1 A
3601421 AGGTCAAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.33
Consensus pattern (9 bp):
ATGATAATA
Found at i:3602380 original size:30 final size:30
Alignment explanation
Indices: 3602346--3602410 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
3602336 CAAATAATTA
*
3602346 TTTAAAATTA-ATTTGTATTAAAAATAAAAT
1 TTTAAAATTATATTTATATT-AAAATAAAAT
* * *
3602376 TTTAAATTTATATTTATATTTAAATAAACT
1 TTTAAAATTATATTTATATTAAAATAAAAT
3602406 TTTAA
1 TTTAA
3602411 TATAATAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 22 0.73
31 8 0.27
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (30 bp):
TTTAAAATTATATTTATATTAAAATAAAAT
Found at i:3604736 original size:2 final size:2
Alignment explanation
Indices: 3604729--3604764 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
3604719 TCCTAGTAAT
3604729 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3604765 AACCTTAGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3610162 original size:32 final size:33
Alignment explanation
Indices: 3610104--3610167 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
3610094 TCATATTTAA
* *
3610104 AATAGTTTATATTAATATAAAATTTAATATATT
1 AATAATTTATATTAATATAAAATTTAAAATATT
*
3610137 AATAATTTATATT-ATATAAATTTTAAAATAT
1 AATAATTTATATTAATATAAAATTTAAAATAT
3610168 ATATTTAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (33 bp):
AATAATTTATATTAATATAAAATTTAAAATATT
Found at i:3610168 original size:16 final size:16
Alignment explanation
Indices: 3610118--3610170 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
3610108 GTTTATATTA
*
3610118 ATATAAAATTTAATAT
1 ATATAAAATTTAAAAT
* *
3610134 AT-TAATAATTTATATT
1 ATATAA-AATTTAAAAT
*
3610150 ATATAAATTTTAAAAT
1 ATATAAAATTTAAAAT
3610166 ATATA
1 ATATA
3610171 TTTAATCATA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
15 3 0.10
16 23 0.79
17 3 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATAAAATTTAAAAT
Found at i:3610211 original size:14 final size:15
Alignment explanation
Indices: 3610186--3610215 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
3610176 TCATATCATA
3610186 ATATATATTATATTT
1 ATATATATTATATTT
3610201 ATATA-ATTATATTT
1 ATATATATTATATTT
3610215 A
1 A
3610216 AAATCATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATATATATTATATTT
Found at i:3612633 original size:11 final size:11
Alignment explanation
Indices: 3612610--3612644 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
3612600 AAGTTAAAAT
*
3612610 TAAAATTAAAA
1 TAAAATTATAA
*
3612621 TAAATTTATAA
1 TAAAATTATAA
3612632 TAAAATTATAA
1 TAAAATTATAA
3612643 TA
1 TA
3612645 TATATTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
TAAAATTATAA
Found at i:3613859 original size:34 final size:34
Alignment explanation
Indices: 3613807--3614024 Score: 285
Period size: 34 Copynumber: 6.4 Consensus size: 34
3613797 TGGATGATTC
* *
3613807 TTGTTGATTAAATG-GTGATTTGGTAGTTTACTA
1 TTGTTGATTAAATGAGAGATTTGGTAGTTTACCA
* *
3613840 TTGTTGATTAAATGAGTGATTTGGTGGTTTACCA
1 TTGTTGATTAAATGAGAGATTTGGTAGTTTACCA
* *
3613874 TTGTTGACTAAATGAGAGATTTGGTAGCTTACCA
1 TTGTTGATTAAATGAGAGATTTGGTAGTTTACCA
* *
3613908 TTGTTGATTAAATGAGAGATTTAGTAGCTTACCA
1 TTGTTGATTAAATGAGAGATTTGGTAGTTTACCA
* * *
3613942 TTGTTGATTAAATGGGTGATTTGGTGGTTTACCTA
1 TTGTTGATTAAATGAGAGATTTGGTAGTTTACC-A
* * * *
3613977 TTATTGACTAAATGAGAGATTTGGTAGGTTGCCA
1 TTGTTGATTAAATGAGAGATTTGGTAGTTTACCA
3614011 TTGTTGATTAAATG
1 TTGTTGATTAAATG
3614025 GTGGTTTTTA
Statistics
Matches: 161, Mismatches: 22, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
33 14 0.09
34 120 0.75
35 27 0.17
ACGTcount: A:0.27, C:0.07, G:0.25, T:0.42
Consensus pattern (34 bp):
TTGTTGATTAAATGAGAGATTTGGTAGTTTACCA
Found at i:3614021 original size:103 final size:101
Alignment explanation
Indices: 3613807--3614025 Score: 348
Period size: 102 Copynumber: 2.1 Consensus size: 101
3613797 TGGATGATTC
* * * *
3613807 TTGTTGATTAAATGGTGATTTGGTAGTTTACTATTGTTGATTAAATGAGTGATTTGGTGGTTTAC
1 TTGTTGATTAAATGGAGATTTAGTAGCTTACCATTGTTGATTAAATGAGTGATTTGGTGGTTTAC
*
3613872 CATTGTTGACTAAATGAGAGATTTGGTAGCTTACCA
66 CATTATTGACTAAATGAGAGATTTGGTAGCTTACCA
*
3613908 TTGTTGATTAAATGAGAGATTTAGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTA
1 TTGTTGATTAAATG-GAGATTTAGTAGCTTACCATTGTTGATTAAATGAGTGATTTGGTGGTTTA
* *
3613973 CCTATTATTGACTAAATGAGAGATTTGGTAGGTTGCCA
65 CC-ATTATTGACTAAATGAGAGATTTGGTAGCTTACCA
3614011 TTGTTGATTAAATGG
1 TTGTTGATTAAATGG
3614026 TGGTTTTTAC
Statistics
Matches: 108, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
101 14 0.13
102 48 0.44
103 46 0.43
ACGTcount: A:0.26, C:0.07, G:0.25, T:0.42
Consensus pattern (101 bp):
TTGTTGATTAAATGGAGATTTAGTAGCTTACCATTGTTGATTAAATGAGTGATTTGGTGGTTTAC
CATTATTGACTAAATGAGAGATTTGGTAGCTTACCA
Found at i:3614356 original size:19 final size:19
Alignment explanation
Indices: 3614332--3614375 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
3614322 TTGGTTGTCG
3614332 AGGTACTATTCACATATAC
1 AGGTACTATTCACATATAC
* *
3614351 AGGTACTATTCACGTATAT
1 AGGTACTATTCACATATAC
3614370 AGGTAC
1 AGGTAC
3614376 ACGTGAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (19 bp):
AGGTACTATTCACATATAC
Found at i:3618485 original size:34 final size:34
Alignment explanation
Indices: 3618427--3618644 Score: 312
Period size: 34 Copynumber: 6.4 Consensus size: 34
3618417 AAGTGAGAGA
*
3618427 ATTGTTGATTAAATG-GTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGAGAGATTTGGTAGTTTACC
* *
3618460 ATTGTTGATTAAATGAGTGATTTGGTGGTTTACC
1 ATTGTTGATTAAATGAGAGATTTGGTAGTTTACC
* *
3618494 ATTGTTGACTAAATGAGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGAGAGATTTGGTAGTTTACC
*
3618528 ATTGTTGATTAAATGAGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGAGAGATTTGGTAGTTTACC
* * *
3618562 ATTGTTGATTAAATGAGTGATTTAGTGGTTTACC
1 ATTGTTGATTAAATGAGAGATTTGGTAGTTTACC
* * *
3618596 ATTGTTGACTAAATGAGAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGAGAGATTTGGTAGTTTACC
*
3618630 ATTATTGATTAAATG
1 ATTGTTGATTAAATG
3618645 GTGGTTTTTA
Statistics
Matches: 166, Mismatches: 18, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
33 15 0.09
34 151 0.91
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (34 bp):
ATTGTTGATTAAATGAGAGATTTGGTAGTTTACC
Found at i:3618566 original size:102 final size:101
Alignment explanation
Indices: 3618427--3618645 Score: 375
Period size: 102 Copynumber: 2.2 Consensus size: 101
3618417 AAGTGAGAGA
* * *
3618427 ATTGTTGATTAAATGGTGATTTGGTAGTTTACCATTGTTGATTAAATGAGTGATTTGGTGGTTTA
1 ATTGTTGATTAAATGGAGATTTGGTAGCTTACCATTGTTGATTAAATGAGTGATTTAGTGGTTTA
3618492 CCATTGTTGACTAAATGAGAGATTTGGTAGCTTACC
66 CCATTGTTGACTAAATGAGAGATTTGGTAGCTTACC
3618528 ATTGTTGATTAAATGAGAGATTTGGTAGCTTACCATTGTTGATTAAATGAGTGATTTAGTGGTTT
1 ATTGTTGATTAAATG-GAGATTTGGTAGCTTACCATTGTTGATTAAATGAGTGATTTAGTGGTTT
* *
3618593 ACCATTGTTGACTAAATGAGAGATTTGGTAGGTTGCC
65 ACCATTGTTGACTAAATGAGAGATTTGGTAGCTTACC
*
3618630 ATTATTGATTAAATGG
1 ATTGTTGATTAAATGG
3618646 TGGTTTTTAC
Statistics
Matches: 111, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
101 16 0.14
102 95 0.86
ACGTcount: A:0.27, C:0.07, G:0.25, T:0.41
Consensus pattern (101 bp):
ATTGTTGATTAAATGGAGATTTGGTAGCTTACCATTGTTGATTAAATGAGTGATTTAGTGGTTTA
CCATTGTTGACTAAATGAGAGATTTGGTAGCTTACC
Found at i:3624751 original size:13 final size:13
Alignment explanation
Indices: 3624733--3624757 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3624723 ATGAATTTAA
3624733 TTTTTTATTAAAT
1 TTTTTTATTAAAT
3624746 TTTTTTATTAAA
1 TTTTTTATTAAA
3624758 GTTTAATAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTTTATTAAAT
Found at i:3625209 original size:16 final size:16
Alignment explanation
Indices: 3625190--3625241 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
3625180 TTAATTAATT
*
3625190 TTAATATATTTATATA
1 TTAATATATTTTTATA
*
3625206 TTAAAATTATTTTTATA
1 TTAATA-TATTTTTATA
3625223 TTTAATA-ATTTTTATA
1 -TTAATATATTTTTATA
3625239 TTA
1 TTA
3625242 TTTATATAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 3 0.10
16 14 0.45
17 9 0.29
18 5 0.16
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTAATATATTTTTATA
Found at i:3628087 original size:2 final size:2
Alignment explanation
Indices: 3628042--3628067 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3628032 AAGTGGACTC
3628042 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
3628068 GATGCGAGGG
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:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:3631983 original size:16 final size:16
Alignment explanation
Indices: 3631958--3631991 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3631948 TCCGATTGAC
* *
3631958 CCGAATCTAAAATGAT
1 CCGAACCTAAAATAAT
3631974 CCGAACCTAAAATAAT
1 CCGAACCTAAAATAAT
3631990 CC
1 CC
3631992 AAACTCGAAA
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:0.44, C:0.26, G:0.09, T:0.21
Consensus pattern (16 bp):
CCGAACCTAAAATAAT
Found at i:3632017 original size:32 final size:32
Alignment explanation
Indices: 3631981--3632042 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
3631971 GATCCGAACC
*
3631981 TAAAATAATCCAAACTCGAAATGATCTAAATT
1 TAAAATAATCCAAACTCAAAATGATCTAAATT
* ***
3632013 TAAAATGATTTGAACTCAAAATGATCTAAA
1 TAAAATAATCCAAACTCAAAATGATCTAAA
3632043 CCTGAAAATG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.50, C:0.13, G:0.08, T:0.29
Consensus pattern (32 bp):
TAAAATAATCCAAACTCAAAATGATCTAAATT
Found at i:3632052 original size:17 final size:16
Alignment explanation
Indices: 3631982--3632053 Score: 63
Period size: 16 Copynumber: 4.4 Consensus size: 16
3631972 ATCCGAACCT
* *
3631982 AAAATAATCCAAACTC
1 AAAATGATCTAAACTC
* * *
3631998 GAAATGATCTAAATTT
1 AAAATGATCTAAACTC
* *
3632014 AAAATGATTTGAACTC
1 AAAATGATCTAAACTC
*
3632030 AAAATGATCTAAACCTG
1 AAAATGATCTAAA-CTC
3632047 AAAATGA
1 AAAATGA
3632054 CTTGAAAATT
Statistics
Matches: 42, Mismatches: 13, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
16 33 0.79
17 9 0.21
ACGTcount: A:0.50, C:0.14, G:0.10, T:0.26
Consensus pattern (16 bp):
AAAATGATCTAAACTC
Found at i:3632059 original size:33 final size:32
Alignment explanation
Indices: 3631993--3632059 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
3631983 AAATAATCCA
* * * *
3631993 AACTCGAAATGATCTAAATTTAAAATGATTTG
1 AACTCAAAATGATCTAAACTGAAAATGACTTG
3632025 AACTCAAAATGATCTAAACCTGAAAATGACTTG
1 AACTCAAAATGATCTAAA-CTGAAAATGACTTG
3632058 AA
1 AA
3632060 AATTGTAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.28
Consensus pattern (32 bp):
AACTCAAAATGATCTAAACTGAAAATGACTTG
Found at i:3632270 original size:22 final size:21
Alignment explanation
Indices: 3632245--3632290 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
3632235 TATTTTAAGA
3632245 ATTAAAATAAAAAATTATAAAT
1 ATTAAAATAAAAAATT-TAAAT
**
3632267 ATTAAAATTTAAAATTTAAAT
1 ATTAAAATAAAAAATTTAAAT
3632288 ATT
1 ATT
3632291 TATATATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
ATTAAAATAAAAAATTTAAAT
Found at i:3632698 original size:17 final size:18
Alignment explanation
Indices: 3632676--3632719 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
3632666 ATATTATATT
3632676 TATATTTAAAATTT-TAA
1 TATATTTAAAATTTATAA
*
3632693 TATATTTTATAATTTATAA
1 TATA-TTTAAAATTTATAA
*
3632712 TGTATTTA
1 TATATTTA
3632720 TATTTATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 4 0.17
18 13 0.57
19 6 0.26
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
TATATTTAAAATTTATAA
Found at i:3633243 original size:31 final size:31
Alignment explanation
Indices: 3633208--3633288 Score: 110
Period size: 31 Copynumber: 2.6 Consensus size: 31
3633198 GCGAATCAAC
*
3633208 TGAGGGGCAATTGTGGCAAAAGCCAA-CTAAT
1 TGAGGAGCAATTGTGGCAAAAGCCAAGC-AAT
* *
3633239 TGAGGAGCAATTGTCGTAAAAGCCAAGCAAT
1 TGAGGAGCAATTGTGGCAAAAGCCAAGCAAT
*
3633270 TGAAGAGCAATTGTGGCAA
1 TGAGGAGCAATTGTGGCAA
3633289 GGGAGAAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
31 42 0.98
32 1 0.02
ACGTcount: A:0.37, C:0.15, G:0.28, T:0.20
Consensus pattern (31 bp):
TGAGGAGCAATTGTGGCAAAAGCCAAGCAAT
Done.