Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 10 of 113
Found at i:2993746 original size:14 final size:14
Alignment explanation
Indices: 2993729--2993780 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
2993719 ATTGATTAAA
2993729 AAAATAAATAAAAT
1 AAAATAAATAAAAT
* **
2993743 AAAATCAATAATTT
1 AAAATAAATAAAAT
* *
2993757 ATACTAAATAAAAT
1 AAAATAAATAAAAT
2993771 ATAAATAAAT
1 A-AAATAAAT
2993781 TTGATATACA
Statistics
Matches: 27, Mismatches: 10, Indels: 1
0.71 0.26 0.03
Matches are distributed among these distances:
14 21 0.78
15 6 0.22
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (14 bp):
AAAATAAATAAAAT
Found at i:3003497 original size:2 final size:2
Alignment explanation
Indices: 3003490--3003515 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3003480 GCAAACTTCC
3003490 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
3003516 TGCGGGGTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3008439 original size:11 final size:11
Alignment explanation
Indices: 3008423--3008463 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
3008413 ATCTCATAAA
3008423 AGATTTGTTTG
1 AGATTTGTTTG
* *
3008434 AGATTTATTAG
1 AGATTTGTTTG
3008445 AGATTTGTTTG
1 AGATTTGTTTG
3008456 AGATTTGT
1 AGATTTGT
3008464 CAAATATTGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (11 bp):
AGATTTGTTTG
Found at i:3008575 original size:52 final size:52
Alignment explanation
Indices: 3008487--3008633 Score: 176
Period size: 52 Copynumber: 2.8 Consensus size: 52
3008477 ATTGACAAGA
* *
3008487 TGACTTGCAAAAGAAGAATTATAAGAA--AAACAAGATTTTTAATAAGTAAGTT
1 TGACTTGCAAAAGAAGAATTCTAA-AAGGAAA-GAGATTTTTAATAAGTAAGTT
*
3008539 TGACTTGCAAAAGAAGAATTCTAAAAGGAAAGAGATTTTTAATAGGTAAGTT
1 TGACTTGCAAAAGAAGAATTCTAAAAGGAAAGAGATTTTTAATAAGTAAGTT
* * *
3008591 TGACTTACAGGAA-AAGAATTCTAAGAGGAGAAG-GATTTTTAAT
1 TGACTTGCA-AAAGAAGAATTCTAAAAGGA-AAGAGATTTTTAAT
3008634 GGGCAAGTTT
Statistics
Matches: 85, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
51 2 0.02
52 75 0.88
53 8 0.09
ACGTcount: A:0.46, C:0.06, G:0.20, T:0.29
Consensus pattern (52 bp):
TGACTTGCAAAAGAAGAATTCTAAAAGGAAAGAGATTTTTAATAAGTAAGTT
Found at i:3012205 original size:18 final size:18
Alignment explanation
Indices: 3012182--3012221 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
3012172 TAAAATTATG
3012182 AATAAAATTAGA-TAATAT
1 AATAAAATTAGATTAA-AT
3012200 AATAAAATTAGATTAAAT
1 AATAAAATTAGATTAAAT
3012218 AATA
1 AATA
3012222 TCATTTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (18 bp):
AATAAAATTAGATTAAAT
Found at i:3014802 original size:29 final size:30
Alignment explanation
Indices: 3014757--3014848 Score: 91
Period size: 30 Copynumber: 3.2 Consensus size: 30
3014747 TTTTATTTTG
*
3014757 TATTTAAATAAAATTTTAAATTTTAAATTA
1 TATTTAAATAAATTTTTAAATTTTAAATTA
** * *
3014787 TATTTAAATAGGTTTTTAATTTTTAATTTA
1 TATTTAAATAAATTTTTAAATTTTAAATTA
** *
3014817 TACCTAAATAAA-TTTTAAA-TATAAATTA
1 TATTTAAATAAATTTTTAAATTTTAAATTA
3014845 -ATTT
1 TATTT
3014849 TTTTTTTGAA
Statistics
Matches: 48, Mismatches: 14, Indels: 3
0.74 0.22 0.05
Matches are distributed among these distances:
27 2 0.04
28 7 0.15
29 6 0.12
30 33 0.69
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (30 bp):
TATTTAAATAAATTTTTAAATTTTAAATTA
Found at i:3023716 original size:35 final size:35
Alignment explanation
Indices: 3023670--3023741 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
3023660 TATGATGTCA
3023670 AAACGATATTAGAGGACAGTATCAACTGTGATCTG
1 AAACGATATTAGAGGACAGTATCAACTGTGATCTG
3023705 AAACGATATTAGAGGACAGTATCAACTGTGATCTG
1 AAACGATATTAGAGGACAGTATCAACTGTGATCTG
3023740 AA
1 AA
3023742 GCTAGGTGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (35 bp):
AAACGATATTAGAGGACAGTATCAACTGTGATCTG
Found at i:3035224 original size:2 final size:2
Alignment explanation
Indices: 3035217--3035252 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
3035207 GACTAGTCGT
*
3035217 TC TC TC TC TC TC TC TC TC TC TC T- TC TT TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
3035253 TATGAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (2 bp):
TC
Found at i:3035491 original size:21 final size:22
Alignment explanation
Indices: 3035432--3035492 Score: 54
Period size: 21 Copynumber: 2.7 Consensus size: 22
3035422 TGGAAAATGT
* *
3035432 TATATACATTT-TTTGAAAACA
1 TATATATATTTATTTTAAAACA
*
3035453 TATAATATTTTTTAATTTTAAAA-A
1 TAT-ATA-TATTT-ATTTTAAAACA
3035477 TATATATATTTATTTT
1 TATATATATTTATTTT
3035493 TATACTGTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
21 8 0.25
22 7 0.22
23 6 0.19
24 4 0.12
25 7 0.22
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (22 bp):
TATATATATTTATTTTAAAACA
Found at i:3036057 original size:3 final size:3
Alignment explanation
Indices: 3036044--3036072 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
3036034 AACGGCTAAC
3036044 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
3036073 AATATTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:3039109 original size:2 final size:2
Alignment explanation
Indices: 3039104--3039134 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
3039094 ACACACACAC
*
3039104 AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3039135 GGGAGGTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3040878 original size:21 final size:21
Alignment explanation
Indices: 3040838--3040879 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3040828 CAAAGAAAAA
*
3040838 AAACATATATTCTATTTGTTT
1 AAACATATATTCTATATGTTT
* *
3040859 AAACGTATATTCTGTATGTTT
1 AAACATATATTCTATATGTTT
3040880 TTGTTTAAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.50
Consensus pattern (21 bp):
AAACATATATTCTATATGTTT
Found at i:3044580 original size:2 final size:2
Alignment explanation
Indices: 3044573--3044629 Score: 105
Period size: 2 Copynumber: 28.5 Consensus size: 2
3044563 TAAAGAAGGA
*
3044573 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AC AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
3044615 AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG A
3044630 ACAATTTTCA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.02, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3049791 original size:82 final size:81
Alignment explanation
Indices: 3049705--3049877 Score: 176
Period size: 82 Copynumber: 2.1 Consensus size: 81
3049695 ATTTAAGGTT
* *
3049705 TAAAAAATATATAAAAAGTA-TTTAAAAATTTTTGTACCATCACAAAAAATACT-AATGATTTTA
1 TAAAAAATATATAAAAA-TATTTTAAAAACTTTTATACCATCACAAAAAATA-TGAATGATTTTA
*
3049768 AATAATTATAAATTTA-T
64 AATAATTATAAATTTAGA
* *** * *
3049785 TATAAAAATCGAT-TAAAAATATTTTAAAAACTTTTATAGCATTGTAAGAAATATGAATTATTTT
1 TA-AAAAAT--ATATAAAAATATTTTAAAAACTTTTATACCATCACAAAAAATATGAATGATTTT
*
3049849 AAATACTTATAAATTTAGA
63 AAATAATTATAAATTTAGA
3049868 -AAAAAATATA
1 TAAAAAATATA
3049878 AATATGAATA
Statistics
Matches: 76, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
79 2 0.03
80 2 0.03
81 15 0.20
82 55 0.72
83 2 0.03
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (81 bp):
TAAAAAATATATAAAAATATTTTAAAAACTTTTATACCATCACAAAAAATATGAATGATTTTAAA
TAATTATAAATTTAGA
Found at i:3064950 original size:3 final size:3
Alignment explanation
Indices: 3064942--3064974 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
3064932 TTTAGGATCA
*
3064942 AAT AAT AAT AAT AAT AAT AAT AAA AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3064975 GTCCAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:3066432 original size:23 final size:25
Alignment explanation
Indices: 3066391--3066438 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
3066381 TCACGTTAAA
*
3066391 TAAAAAAATTATTTATATATAATTT
1 TAAAAAAATTATCTATATATAATTT
*
3066416 TAAAAAAATTA-CT-TATATTATTT
1 TAAAAAAATTATCTATATATAATTT
3066439 AAGTAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 9 0.43
24 1 0.05
25 11 0.52
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (25 bp):
TAAAAAAATTATCTATATATAATTT
Found at i:3067063 original size:15 final size:16
Alignment explanation
Indices: 3067023--3067063 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
3067013 AAATTTTATT
*
3067023 ATATTCTATAAACATA
1 ATATTCTTTAAACATA
3067039 ATTATT-TTTAAA-ATA
1 A-TATTCTTTAAACATA
3067054 ATATTCTTTA
1 ATATTCTTTA
3067064 CACCTCAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
14 4 0.18
15 8 0.36
16 6 0.27
17 4 0.18
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATTCTTTAAACATA
Found at i:3067099 original size:17 final size:17
Alignment explanation
Indices: 3067077--3067109 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
3067067 CTCAAAATCA
3067077 TATTTCT-TCTTTCTTAT
1 TATTTCTGT-TTTCTTAT
3067094 TATTTCTGTTTTCTTA
1 TATTTCTGTTTTCTTA
3067110 CATTTTCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.93
18 1 0.07
ACGTcount: A:0.12, C:0.15, G:0.03, T:0.70
Consensus pattern (17 bp):
TATTTCTGTTTTCTTAT
Found at i:3068254 original size:2 final size:2
Alignment explanation
Indices: 3068247--3068276 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3068237 AAAGGTACAG
3068247 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
3068277 CATGAGTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3079399 original size:164 final size:165
Alignment explanation
Indices: 3079077--3079410 Score: 377
Period size: 164 Copynumber: 2.0 Consensus size: 165
3079067 CAATGAAATT
** * *
3079077 TTAAGAGAGTCACATGCTAAGAACTTTTGAAACTATTGAACTTAAATTGGTCAAAAGCAAGATGA
1 TTAAGAGAGTCACATGCTAAGAACTTCAGAAAATATTGAACTTAAAATGGTCAAAAGCAAGATGA
* * *
3079142 AGAAACTGTTATTGGAGGGAAGAAAGGTGATAACAAACAATTAAAATCTTAGTTCTGTTTACTTC
66 AGAAACTATTATTGGAAGGAAGAAAGGCGATAACAAACAATTAAAATCTTAGTTCTGTTTACTTC
* * * *
3079207 TGCAGAGTTCTTACACTTATTTGAAACTTGTATGA
131 TGCAGAGTTCTGACACTTACTGGAAACTTATATGA
* ** *
3079242 TTAAGAGA-TCACATGCTAATAACTTCAGAAAATATTGAACTTAAAATGGTTGAAAGCAAGGTGA
1 TTAAGAGAGTCACATGCTAAGAACTTCAGAAAATATTGAACTTAAAATGGTCAAAAGCAAGATGA
* * * *** **
3079306 AGAGACTATTATTGGAAGTAAGAAGGGCGATAGTTAACAATTAGGATCTTAGTT-TGTTTTACTT
66 AGAAACTATTATTGGAAGGAAGAAAGGCGATAACAAACAATTAAAATCTTAGTTCTG-TTTACTT
* * * * *
3079370 CTG-TGCTGTTGTGGCATTTACTGGAAACTTATATGA
130 CTGCAG-AGTTCTGACACTTACTGGAAACTTATATGA
3079406 TTAAG
1 TTAAG
3079411 CATGTCATGA
Statistics
Matches: 139, Mismatches: 28, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
163 3 0.02
164 128 0.92
165 8 0.06
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.32
Consensus pattern (165 bp):
TTAAGAGAGTCACATGCTAAGAACTTCAGAAAATATTGAACTTAAAATGGTCAAAAGCAAGATGA
AGAAACTATTATTGGAAGGAAGAAAGGCGATAACAAACAATTAAAATCTTAGTTCTGTTTACTTC
TGCAGAGTTCTGACACTTACTGGAAACTTATATGA
Found at i:3091150 original size:11 final size:11
Alignment explanation
Indices: 3091120--3091150 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
3091110 GAAAGTCAAC
*
3091120 TTCTTTTTCTT
1 TTCTTTTTTTT
3091131 TTCTTTTTTTT
1 TTCTTTTTTTT
3091142 TTCTTTTTT
1 TTCTTTTTT
3091151 GGATGTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:3096301 original size:23 final size:22
Alignment explanation
Indices: 3096273--3096325 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 22
3096263 AATAATTTTT
*
3096273 TAAATATATTT-AATATGCATATA
1 TAAATATATTTCAAAAT--ATATA
3096296 TAAATA-ATTTCAAAATATATA
1 TAAATATATTTCAAAATATATA
3096317 TAAATATAT
1 TAAATATAT
3096326 AAAATAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 11 0.41
22 6 0.22
23 10 0.37
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (22 bp):
TAAATATATTTCAAAATATATA
Found at i:3096329 original size:19 final size:19
Alignment explanation
Indices: 3096291--3096344 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 19
3096281 TTTAATATGC
*
3096291 ATATATAAATAATTTCAAAAT
1 ATATATAAAT-ATAT-AAAAT
3096312 ATATATAAATATATAAAAT
1 ATATATAAATATATAAAAT
* *
3096331 AAAT-TTAATATATA
1 ATATATAAATATATA
3096345 TTTATAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
18 9 0.30
19 8 0.27
20 3 0.10
21 10 0.33
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
ATATATAAATATATAAAAT
Found at i:3096645 original size:23 final size:22
Alignment explanation
Indices: 3096603--3096645 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
3096593 AATTAAAATG
*
3096603 TTTATAATATATTATTATATAA
1 TTTATAATATATTATAATATAA
3096625 TTTATTAATA-ATATATAATAT
1 TTTA-TAATATAT-TATAATAT
3096646 TATACACCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTATAATATATTATAATATAA
Found at i:3101135 original size:2 final size:2
Alignment explanation
Indices: 3101130--3101157 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3101120 CGTGCGCGCG
3101130 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
3101158 TCTGAAGACT
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:3110993 original size:38 final size:38
Alignment explanation
Indices: 3110942--3111020 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
3110932 TGAAGGGAAA
*
3110942 TATGTTCACACAACATGCTCAAGGGTTTGAATCTACTC
1 TATGTTCACACAACATACTCAAGGGTTTGAATCTACTC
3110980 TATGTTCACACAACATACTCAAGGGTTTGAATCTACTC
1 TATGTTCACACAACATACTCAAGGGTTTGAATCTACTC
3111018 TAT
1 TAT
3111021 CTATTAAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (38 bp):
TATGTTCACACAACATACTCAAGGGTTTGAATCTACTC
Found at i:3124152 original size:37 final size:37
Alignment explanation
Indices: 3124102--3124175 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
3124092 CCAATCGTCA
*
3124102 AAGAGAGATAGAGATTACCTACTGAAGGTACAGCGAT
1 AAGAGAGATAGAGATTACCAACTGAAGGTACAGCGAT
3124139 AAGAGAGATAGAGATTACCAACTGAAGGTACAGCGAT
1 AAGAGAGATAGAGATTACCAACTGAAGGTACAGCGAT
3124176 CAATGCAATG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.42, C:0.14, G:0.27, T:0.18
Consensus pattern (37 bp):
AAGAGAGATAGAGATTACCAACTGAAGGTACAGCGAT
Found at i:3126836 original size:2 final size:2
Alignment explanation
Indices: 3126829--3126861 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3126819 ATTAAGGAAA
3126829 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
3126862 AAGACTATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3129077 original size:21 final size:21
Alignment explanation
Indices: 3129043--3129082 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
3129033 TTTTACAAGT
3129043 ATTTTAAATAAATATATAAAA
1 ATTTTAAATAAATATATAAAA
3129064 ATTTATAAAT-AATATATAA
1 ATTT-TAAATAAATATATAA
3129083 TTATATGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
ATTTTAAATAAATATATAAAA
Found at i:3139525 original size:134 final size:134
Alignment explanation
Indices: 3139226--3139534 Score: 336
Period size: 134 Copynumber: 2.3 Consensus size: 134
3139216 TCAAAAATTC
* * **
3139226 AAATCATCGGATTGGTGGTCGCTTGACTTGCACCTAGATGGTGCAGGTTACATGTATTTTCAAGT
1 AAATCATCGGATTGGTGGTCGCTTGACTTGCATCTAGATGGTGCAGCTTACATGTAGATTCAAGT
* * ** *
3139291 TTCAACTAAATATTTCCTAGTGTTGAGTATTCATTTATCTTGGAGGGAAAACTCAAACCTCAGCG
66 TTCAACTAAATATTTCCTAGTGTTCAATATTCATACATCTTGGAGGGAAAACTCAAACCTCAACG
3139356 ACGG
131 ACGG
* * ** * * * *
3139360 GAATCATCAGATTAATGGTTGCGTGACTTGCATCTAGATGTTGTG-A-CTTATATGTAGATTCAT
1 AAATCATCGGATTGGTGGTCGCTTGACTTGCATCTAGATG--GTGCAGCTTACATGTAGATTCAA
* * * **
3139423 GTTTCAACTAAATCTTTTCTAGTGTTCAATATTTATACAT-TCTGGAGGGAAAACTCTGACCTCA
64 GTTTCAACTAAATATTTCCTAGTGTTCAATATTCATACATCT-TGGAGGGAAAACTCAAACCTCA
*
3139487 ACGATGG
128 ACGACGG
* * *
3139494 AAATCATTGGATTGGTGGTCGCTTGAGTTGCATCTAAATGG
1 AAATCATCGGATTGGTGGTCGCTTGACTTGCATCTAGATGG
3139535 CTTCCATATC
Statistics
Matches: 140, Mismatches: 32, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
132 1 0.01
133 1 0.01
134 134 0.96
135 1 0.01
136 3 0.02
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (134 bp):
AAATCATCGGATTGGTGGTCGCTTGACTTGCATCTAGATGGTGCAGCTTACATGTAGATTCAAGT
TTCAACTAAATATTTCCTAGTGTTCAATATTCATACATCTTGGAGGGAAAACTCAAACCTCAACG
ACGG
Found at i:3147034 original size:129 final size:129
Alignment explanation
Indices: 3146874--3147135 Score: 515
Period size: 129 Copynumber: 2.0 Consensus size: 129
3146864 CTTCCTCCTG
*
3146874 CTCCTGGACCTGTTCCAGCCGTTGCACCTTGGCCGGTGAACATGCCTCCTATTCACTCTGCACCT
1 CTCCTGGACCTGTTCCAGCCGTTGCACCTTGGCCAGTGAACATGCCTCCTATTCACTCTGCACCT
3146939 TCTACTGTCTTACCAAATCCAATGTGCTCCTCCCCTCGCCATCCATATCCATCACCTCCTCCAA
66 TCTACTGTCTTACCAAATCCAATGTGCTCCTCCCCTCGCCATCCATATCCATCACCTCCTCCAA
3147003 CTCCTGGACCTGTTCCAGCCGTTGCACCTTGGCCAGTGAACATGCCTCCTATTCACTCTGCACCT
1 CTCCTGGACCTGTTCCAGCCGTTGCACCTTGGCCAGTGAACATGCCTCCTATTCACTCTGCACCT
3147068 TCTACTGTCTTACCAAATCCAATGTGCTCCTCCCCTCGCCATCCATATCCATCACCTCCTCCAA
66 TCTACTGTCTTACCAAATCCAATGTGCTCCTCCCCTCGCCATCCATATCCATCACCTCCTCCAA
3147132 CTCC
1 CTCC
3147136 AAACATGATG
Statistics
Matches: 132, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
129 132 1.00
ACGTcount: A:0.18, C:0.42, G:0.13, T:0.28
Consensus pattern (129 bp):
CTCCTGGACCTGTTCCAGCCGTTGCACCTTGGCCAGTGAACATGCCTCCTATTCACTCTGCACCT
TCTACTGTCTTACCAAATCCAATGTGCTCCTCCCCTCGCCATCCATATCCATCACCTCCTCCAA
Found at i:3157659 original size:36 final size:36
Alignment explanation
Indices: 3157619--3157688 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
3157609 AGACTTCGGG
* * *
3157619 TTCTGGGGTGGA-TTCTGAGGTTGTTGAGAGTTGGAT
1 TTCTGGGATGGAGTT-TGAGGTTCTTCAGAGTTGGAT
*
3157655 TTCTGGGATGGAGTTTGGGGTTCTTCAGAGTTGG
1 TTCTGGGATGGAGTTTGAGGTTCTTCAGAGTTGG
3157689 GCTTTCGGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 27 0.93
37 2 0.07
ACGTcount: A:0.13, C:0.07, G:0.41, T:0.39
Consensus pattern (36 bp):
TTCTGGGATGGAGTTTGAGGTTCTTCAGAGTTGGAT
Found at i:3158078 original size:36 final size:36
Alignment explanation
Indices: 3157991--3158113 Score: 124
Period size: 36 Copynumber: 3.4 Consensus size: 36
3157981 TTTATGGTTT
3157991 GGTTCCTGGGGTGGA-TTCTGAGGTTCTTCAGAGTTG
1 GGTTCCTGGGGTGGAGTT-TGAGGTTCTTCAGAGTTG
* *
3158027 GAATT-TTGGGGTGGAGTTTGAGGTTCTTCAGAGTTG
1 G-GTTCCTGGGGTGGAGTTTGAGGTTCTTCAGAGTTG
* * * * * *
3158063 GGTTCCTGAGATGGAGTTTGAAGTTGTTGAGATTTG
1 GGTTCCTGGGGTGGAGTTTGAGGTTCTTCAGAGTTG
* *
3158099 AGTTGCTGGGGTGGA
1 GGTTCCTGGGGTGGA
3158114 TTAATGTCAG
Statistics
Matches: 70, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
35 2 0.03
36 64 0.91
37 4 0.06
ACGTcount: A:0.15, C:0.08, G:0.40, T:0.37
Consensus pattern (36 bp):
GGTTCCTGGGGTGGAGTTTGAGGTTCTTCAGAGTTG
Found at i:3163612 original size:43 final size:43
Alignment explanation
Indices: 3163537--3163621 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
3163527 TATATGCATT
* * *
3163537 CATATATCATATCTATGTGAATCATTTTAATCTCTTTTAATTA
1 CATACATCATATCTATGTGAATCATTTCAATCTCTTATAATTA
* *
3163580 CATACATCATATTTATGTGGACTC-TTTCAATCTCTTATAATT
1 CATACATCATATCTATGT-GAATCATTTCAATCTCTTATAATT
3163622 TACTCAAACA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
43 32 0.89
44 4 0.11
ACGTcount: A:0.31, C:0.16, G:0.06, T:0.47
Consensus pattern (43 bp):
CATACATCATATCTATGTGAATCATTTCAATCTCTTATAATTA
Found at i:3168450 original size:22 final size:21
Alignment explanation
Indices: 3168415--3168480 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 21
3168405 TTTTTAAAAT
*
3168415 TAAAATATTTAATTCAATTAA
1 TAAAATAATTAATTCAATTAA
*
3168436 TAAATATAATTAATTTAATT--
1 TAAA-ATAATTAATTCAATTAA
*
3168456 TTAAATAATTAGATTCGAAATTAA
1 TAAAATAATTA-ATTC--AATTAA
3168480 T
1 T
3168481 TGAATTGAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
19 7 0.20
20 6 0.17
21 4 0.11
22 17 0.49
24 1 0.03
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (21 bp):
TAAAATAATTAATTCAATTAA
Found at i:3169164 original size:32 final size:30
Alignment explanation
Indices: 3169109--3169172 Score: 76
Period size: 32 Copynumber: 2.1 Consensus size: 30
3169099 TTTAAATTCG
**
3169109 ATTTGATTATTATTGAGTTAAATT-AAAGTA
1 ATTTGATTATTATTGAGCCAAATTCAAA-TA
3169139 ATTTGACTTATTTATTGAGCCAAATTCAAATA
1 ATTTGA-TTA-TTATTGAGCCAAATTCAAATA
3169171 AT
1 AT
3169173 CTTATATCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 6 0.21
31 3 0.10
32 17 0.59
33 3 0.10
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (30 bp):
ATTTGATTATTATTGAGCCAAATTCAAATA
Found at i:3170157 original size:30 final size:30
Alignment explanation
Indices: 3170081--3170183 Score: 115
Period size: 30 Copynumber: 3.5 Consensus size: 30
3170071 TAATTGATTG
*
3170081 AAAAA-TAAAAAATTATTTATATATAAATT
1 AAAAATTAAAAACTTATTTATATATAAATT
*** *
3170110 AAAAATTATTTATTTATTTATATATAAATT
1 AAAAATTAAAAACTTATTTATATATAAATT
3170140 AAAAATTAAAAACTTATTTA-AGTAT-AA-T
1 AAAAATTAAAAACTTATTTATA-TATAAATT
3170168 AAAAATATAAAAACTT
1 AAAAAT-TAAAAACTT
3170184 CTCTAAAAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
28 7 0.11
29 17 0.27
30 39 0.62
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (30 bp):
AAAAATTAAAAACTTATTTATATATAAATT
Found at i:3170195 original size:29 final size:28
Alignment explanation
Indices: 3170139--3170195 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
3170129 ATATATAAAT
* **
3170139 TAAAAATTAAAAACTTATTTAAGTATAA
1 TAAAAATTAAAAACTTATCTAAAAATAA
*
3170167 TAAAAATATAAAAACTTCTCTAAAAATAA
1 TAAAAAT-TAAAAACTTATCTAAAAATAA
3170196 CAAAGTTCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.32
Consensus pattern (28 bp):
TAAAAATTAAAAACTTATCTAAAAATAA
Found at i:3185328 original size:21 final size:20
Alignment explanation
Indices: 3185290--3185333 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
3185280 ATTTTAATAC
3185290 AATTTCGATAACTTTGATAG
1 AATTTCGATAACTTTGATAG
*
3185310 AATTTTGATAACATTTGATAG
1 AATTTCGATAAC-TTTGATAG
3185331 AAT
1 AAT
3185334 ATTGGTTACC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.41
Consensus pattern (20 bp):
AATTTCGATAACTTTGATAG
Found at i:3191686 original size:30 final size:30
Alignment explanation
Indices: 3191627--3191714 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
3191617 ATATTTAAAT
* *
3191627 TTTATTTGGAAATAAATTAAAAATTAAAAA
1 TTTATTTGGATATAAATTAAAAATCAAAAA
**
3191657 TTTATTTGGATATAAATTAAAGGTCAAAAA
1 TTTATTTGGATATAAATTAAAAATCAAAAA
* * *
3191687 ATTATTTAGATA-CAA-TAAAAAT-AAAAA
1 TTTATTTGGATATAAATTAAAAATCAAAAA
3191714 T
1 T
3191715 AATTATTTAA
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
27 5 0.10
28 5 0.10
29 2 0.04
30 36 0.75
ACGTcount: A:0.55, C:0.02, G:0.08, T:0.35
Consensus pattern (30 bp):
TTTATTTGGATATAAATTAAAAATCAAAAA
Found at i:3213489 original size:62 final size:63
Alignment explanation
Indices: 3213339--3213492 Score: 195
Period size: 63 Copynumber: 2.5 Consensus size: 63
3213329 TATAAACTCT
* ** * *
3213339 TTAAATAATATTTTTATATATTTATAAAATGATTATTTAATAGTTTTTTTGTACAAAAATATC
1 TTAAATAATATTTTTATACAAATATAAATTAATTATTTAATAGTTTTTTTGTACAAAAATATC
* * ** *
3213402 TTAAATAATATTTTTAGACAAATATAAATTAATTATTTAA-GGTATTTTTTGTATTAAAATGTC
1 TTAAATAATATTTTTATACAAATATAAATTAATTATTTAATAGT-TTTTTTGTACAAAAATATC
3213465 TTAAATAAT-TTTTTATACAAATATAAAT
1 TTAAATAATATTTTTATACAAATATAAAT
3213493 GAAATAATTC
Statistics
Matches: 79, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
62 20 0.25
63 59 0.75
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (63 bp):
TTAAATAATATTTTTATACAAATATAAATTAATTATTTAATAGTTTTTTTGTACAAAAATATC
Found at i:3214890 original size:29 final size:29
Alignment explanation
Indices: 3214818--3214895 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 29
3214808 TCATTTTTTT
3214818 AAAATAAAAATTTATTTAAATACAAATAA
1 AAAATAAAAATTTATTTAAATACAAATAA
** * * *
3214847 AAAATAATTACTTATTTTAATAGAAGA-AA
1 AAAATAAAAATTTATTTAAATACAA-ATAA
*
3214876 AATATAAAAATTTATTTAAA
1 AAAATAAAAATTTATTTAAA
3214896 AAATAAAATA
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
29 37 0.97
30 1 0.03
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (29 bp):
AAAATAAAAATTTATTTAAATACAAATAA
Found at i:3220226 original size:18 final size:17
Alignment explanation
Indices: 3220184--3220230 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
3220174 ATAACTCAAT
3220184 TTAAATA-TAAA-ATTA
1 TTAAATATTAAATATTA
* *
3220199 TAAAAAATTAAATATTTA
1 TTAAATATTAAATA-TTA
3220217 TTAAATATTAAATA
1 TTAAATATTAAATA
3220231 ACATCACTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
15 5 0.20
16 4 0.16
17 1 0.04
18 15 0.60
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TTAAATATTAAATATTA
Found at i:3225589 original size:39 final size:38
Alignment explanation
Indices: 3225529--3225614 Score: 136
Period size: 39 Copynumber: 2.2 Consensus size: 38
3225519 CGCACAATCC
*
3225529 AAATGTTAAGGAATTTAGATTGCGTGTCCTGAAAAAAAA
1 AAATGTTAAGGAATGTAGATTGCGTGTCCTG-AAAAAAA
* *
3225568 AAATGTTAAGGAATGTCGATTGCGTGTCCTGAAAAGAA
1 AAATGTTAAGGAATGTAGATTGCGTGTCCTGAAAAAAA
3225606 AAATGTTAA
1 AAATGTTAA
3225615 AGTAATTTGG
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
38 15 0.34
39 29 0.66
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.28
Consensus pattern (38 bp):
AAATGTTAAGGAATGTAGATTGCGTGTCCTGAAAAAAA
Found at i:3230127 original size:27 final size:26
Alignment explanation
Indices: 3230096--3230146 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
3230086 CGATGAATAC
*
3230096 TAATTTAAAAAATATTAGTAATATTTA
1 TAATTTAAAAAACATTA-TAATATTTA
*
3230123 TAATTTATAAAACATTATAATATT
1 TAATTTAAAAAACATTATAATATT
3230147 AGTAAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (26 bp):
TAATTTAAAAAACATTATAATATTTA
Found at i:3234371 original size:44 final size:44
Alignment explanation
Indices: 3234323--3234408 Score: 109
Period size: 44 Copynumber: 2.0 Consensus size: 44
3234313 GCATCCATTC
*
3234323 ATGCAGTCACTTATGAATCCATGCATCATTAAATTGTTATGTGA
1 ATGCAGTCACTTATCAATCCATGCATCATTAAATTGTTATGTGA
* * * * * *
3234367 ATGCATTTATTTATCTATTCATGCATCATTGAATTGTTATGT
1 ATGCAGTCACTTATCAATCCATGCATCATTAAATTGTTATGT
3234409 ATCACATTCA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (44 bp):
ATGCAGTCACTTATCAATCCATGCATCATTAAATTGTTATGTGA
Found at i:3238678 original size:22 final size:22
Alignment explanation
Indices: 3238653--3238709 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
3238643 ATAAGAAATG
3238653 ATTTGTAAGACCTTCGAGCATA
1 ATTTGTAAGACCTTCGAGCATA
* * *
3238675 ATTTATAAGACTTTTGAGCATA
1 ATTTGTAAGACCTTCGAGCATA
3238697 ATTTGTAAGACCT
1 ATTTGTAAGACCT
3238710 CCAAACATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (22 bp):
ATTTGTAAGACCTTCGAGCATA
Found at i:3241254 original size:2 final size:2
Alignment explanation
Indices: 3241247--3241280 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3241237 GTATTTGTAC
3241247 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
3241281 GCCATGTCTA
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:3246416 original size:9 final size:9
Alignment explanation
Indices: 3246402--3246434 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
3246392 CTGGATTAGA
3246402 TGTGGGGAT
1 TGTGGGGAT
3246411 TGTGGGGGAT
1 TGT-GGGGAT
3246421 TGTGGGGAT
1 TGTGGGGAT
3246430 TGTGG
1 TGTGG
3246435 TGGACCAGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.09, C:0.00, G:0.58, T:0.33
Consensus pattern (9 bp):
TGTGGGGAT
Found at i:3246420 original size:10 final size:10
Alignment explanation
Indices: 3246405--3246434 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
3246395 GATTAGATGT
3246405 GGGGATTGTG
1 GGGGATTGTG
3246415 GGGGATTGT-
1 GGGGATTGTG
3246424 GGGGATTGTG
1 GGGGATTGTG
3246434 G
1 G
3246435 TGGACCAGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.10, C:0.00, G:0.60, T:0.30
Consensus pattern (10 bp):
GGGGATTGTG
Found at i:3248746 original size:2 final size:2
Alignment explanation
Indices: 3248734--3248763 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
3248724 ATATTGGTAT
3248734 TA TA T- 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 T
3248764 GTAAGATGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:3253568 original size:20 final size:21
Alignment explanation
Indices: 3253502--3253569 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 21
3253492 AGTTTAATTT
3253502 AATATATAAATTTA-A-TAAA
1 AATATATAAATTTATATTAAA
3253521 AATA-ATAAATTT-TATATAATTA
1 AATATATAAATTTATAT-TAA--A
3253543 AA-ATAT-AATTTATATTAAA
1 AATATATAAATTTATATTAAA
3253562 AATATATA
1 AATATATA
3253570 TTTATAAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 16
0.71 0.00 0.29
Matches are distributed among these distances:
18 9 0.22
19 7 0.17
20 7 0.17
21 9 0.22
22 8 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AATATATAAATTTATATTAAA
Found at i:3253593 original size:33 final size:31
Alignment explanation
Indices: 3253533--3253593 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
3253523 TAATAAATTT
*
3253533 TATATAATTAAAATATAATTTATATTAAAAA
1 TATATAATTAAAATATAATTTAAATTAAAAA
* *
3253564 TATATATTTATAAATATTATATTAAATTAA
1 TATATAATTA-AAATATAAT-TTAAATTAA
3253594 TTTTATATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 9 0.36
32 8 0.32
33 8 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (31 bp):
TATATAATTAAAATATAATTTAAATTAAAAA
Found at i:3253601 original size:33 final size:31
Alignment explanation
Indices: 3253528--3253601 Score: 76
Period size: 33 Copynumber: 2.3 Consensus size: 31
3253518 AAAAATAATA
*
3253528 AATTTTATATAATTAAAATATAATTTATATT
1 AATTTTATATAATTAAAATATAATTTAAATT
*** * *
3253559 AAAAATATATATTTATAAATATTATATTAAATT
1 AATTTTATATAATTA-AAATATAAT-TTAAATT
3253592 AATTTTATAT
1 AATTTTATAT
3253602 TAGATGCTAA
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
31 11 0.34
32 8 0.25
33 13 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (31 bp):
AATTTTATATAATTAAAATATAATTTAAATT
Found at i:3255729 original size:19 final size:19
Alignment explanation
Indices: 3255707--3255749 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
3255697 TAATTACATC
* *
3255707 ATAAAGATAAAATTTTAAT
1 ATAAAGAAAAAAATTTAAT
*
3255726 ATAAATAAAAAAATTTAAT
1 ATAAAGAAAAAAATTTAAT
*
3255745 TTAAA
1 ATAAA
3255750 ATCAAATATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
ATAAAGAAAAAAATTTAAT
Found at i:3256485 original size:15 final size:15
Alignment explanation
Indices: 3256465--3256494 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3256455 GGGCAAAAAA
3256465 ACAACAACAACAAAG
1 ACAACAACAACAAAG
*
3256480 ACAACAACAGCAAAG
1 ACAACAACAACAAAG
3256495 GATAGCAACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.27, G:0.10, T:0.00
Consensus pattern (15 bp):
ACAACAACAACAAAG
Found at i:3278447 original size:42 final size:41
Alignment explanation
Indices: 3278400--3278497 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 41
3278390 ATTATATTAG
*
3278400 TAATTTTAATTATATAAAT-ATTGAAAATA-AATAATTTTATTT
1 TAATTTTAATTATATAAATCA-T-AAAATATAATAATATTA-TT
* *
3278442 TAATTTTTATATATATCAATCATAAAATATAATAATATTATT
1 TAATTTTAAT-TATATAAATCATAAAATATAATAATATTATT
3278484 TAA-TTTAATTATAT
1 TAATTTTAATTATAT
3278498 TTATAATACC
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
40 5 0.10
41 5 0.10
42 20 0.41
43 18 0.37
44 1 0.02
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (41 bp):
TAATTTTAATTATATAAATCATAAAATATAATAATATTATT
Found at i:3279645 original size:2 final size:2
Alignment explanation
Indices: 3279638--3279662 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3279628 TTAAATTTAC
3279638 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 T
3279663 TTCCTTGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3303072 original size:17 final size:17
Alignment explanation
Indices: 3303047--3303091 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 17
3303037 AATTTCTCTA
3303047 CTTATTTATTATTTATTTG
1 CTTA-TTATTATTT-TTTG
3303066 -TTATTATTATTTTTTG
1 CTTATTATTATTTTTTG
3303082 CTTATGTATT
1 CTTAT-TATT
3303092 TATTGATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 4 0.17
17 13 0.54
18 7 0.29
ACGTcount: A:0.20, C:0.04, G:0.07, T:0.69
Consensus pattern (17 bp):
CTTATTATTATTTTTTG
Found at i:3303229 original size:18 final size:19
Alignment explanation
Indices: 3303196--3303231 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
3303186 TAAGAAAAAG
*
3303196 TTGAAAGTATCAATTTTTC
1 TTGAAAATATCAATTTTTC
3303215 TTGAAAATA-CAATTTTT
1 TTGAAAATATCAATTTTT
3303232 AAAAGAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.47
Consensus pattern (19 bp):
TTGAAAATATCAATTTTTC
Found at i:3303229 original size:60 final size:58
Alignment explanation
Indices: 3303154--3303295 Score: 194
Period size: 60 Copynumber: 2.4 Consensus size: 58
3303144 CAATGATTTC
* * *
3303154 CTTACAAATAAAATTTTCAAAAAAATCATTTTTAAGAAAAAGTTGAAAGTATCAATTTTT
1 CTTAAAAATAAAATTTT-AAAAAAAT-ATTTTTAAGAAAAAATTAAAAGTATCAATTTTT
* * *
3303214 CTTGAAAATACAATTTTTAAAAGAAATATTTTTGAGAAAAAATTAAAAGTATCAATTTTT
1 CTTAAAAATA-AAATTTTAAAA-AAATATTTTTAAGAAAAAATTAAAAGTATCAATTTTT
3303274 CTTAAAAATAAAATTTTAAAAA
1 CTTAAAAATAAAATTTTAAAAA
3303296 TTTTTCAAAA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
58 1 0.01
59 10 0.14
60 51 0.71
61 10 0.14
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (58 bp):
CTTAAAAATAAAATTTTAAAAAAATATTTTTAAGAAAAAATTAAAAGTATCAATTTTT
Found at i:3303376 original size:130 final size:129
Alignment explanation
Indices: 3303163--3303425 Score: 320
Period size: 129 Copynumber: 2.0 Consensus size: 129
3303153 CCTTACAAAT
*
3303163 AAAATTTTCAAAAAAATCATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATACAAT
1 AAAATTTTCAAAAAAATCATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAT
* *
3303228 TTTTAAAAGAAATATTTTTGAGAAAAAATT-AAAAGTATCAATTTTTCTTAAAAATAAAATTTT-
66 TTTAAAAAGAAATATTTTT-AGAAAAAATTGAAAA-TATAAATTTTTCTTAAAAATAAAATTTTC
3303291 A
129 A
* * * *
3303292 AAAATTTTTC-AAAAAATGTATTTTTAAGGAAAAGTTGAAAGTGTCAATTTTT-TT-TAAATAAA
1 AAAA-TTTTCAAAAAAAT-CATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT-AA
** * * * *
3303354 AATTTTAAAAAGGGTATTTTTTTAGGAAAAGTTGAAAATATAAATTTTTTTTAAAAATAAAATTT
63 AATTTTAAAAA-GAAATATTTTTAGAAAAAATTGAAAATATAAATTTTTCTTAAAAATAAAATTT
3303419 TCA
127 TCA
3303422 AAAA
1 AAAA
3303426 AATATTTTTA
Statistics
Matches: 115, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
128 4 0.03
129 58 0.50
130 53 0.46
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.39
Consensus pattern (129 bp):
AAAATTTTCAAAAAAATCATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAT
TTTAAAAAGAAATATTTTTAGAAAAAATTGAAAATATAAATTTTTCTTAAAAATAAAATTTTCA
Found at i:3303387 original size:59 final size:59
Alignment explanation
Indices: 3303290--3303578 Score: 277
Period size: 59 Copynumber: 4.9 Consensus size: 59
3303280 AATAAAATTT
* * *
3303290 TAAAAATTTTTCAAAAAATGTATTTTTAAGGAAAAGTTGAAAGTGTCAATTTTTTTTAAA
1 TAAAAA-TTTTCAAAAAATATATTTTTAAGGAAAAGTTGAAAATATCAATTTTTTTTAAA
* * *
3303350 TAAAAATTTT-AAAAAGGGTAT-TTTTTTAGGAAAAGTTGAAAATATAAATTTTTTTTAAA
1 TAAAAATTTTCAAAAA--ATATATTTTTAAGGAAAAGTTGAAAATATCAATTTTTTTTAAA
* * * *
3303409 AATAAAATTTTCAAAAAA-ATATTTTTAAGGAAAAGTTGAAAGTATTAATTTTTCTTAAA
1 TA-AAAATTTTCAAAAAATATATTTTTAAGGAAAAGTTGAAAATATCAATTTTTTTTAAA
* **
3303468 -AATAAA-TTTAAAAAATATATATTTTTAAGGAAAAGTTGAAAATATCAATTTTTCTCGAAAA
1 TAA-AAATTTTCAAAAA-ATATATTTTTAAGGAAAAGTTGAAAATATCAATTTTT-T-TTAAA
* * * * ** *
3303529 TAAAGA-TTTCAAAAAAAATA-TTTTGAGAAAAAACTGAAAGTATCAATTTT
1 TAAAAATTTTCAAAAAATATATTTTTAAGGAAAAGTTGAAAATATCAATTTT
3303579 CCTGGTATAA
Statistics
Matches: 192, Mismatches: 26, Indels: 23
0.80 0.11 0.10
Matches are distributed among these distances:
57 9 0.05
58 12 0.06
59 131 0.68
60 20 0.10
61 18 0.09
62 2 0.01
ACGTcount: A:0.48, C:0.03, G:0.10, T:0.38
Consensus pattern (59 bp):
TAAAAATTTTCAAAAAATATATTTTTAAGGAAAAGTTGAAAATATCAATTTTTTTTAAA
Found at i:3303440 original size:118 final size:118
Alignment explanation
Indices: 3303159--3303578 Score: 409
Period size: 118 Copynumber: 3.4 Consensus size: 118
3303149 ATTTCCTTAC
* *
3303159 AAATAAAATTTTCAAAAAAATCATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATA
1 AAATAAAATTTTCAAAAAAAT-ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATA
** * * * * * *
3303224 CAATTTTTAAAAGAAATATTTTTGAGAAAAAATT-AAAAGTATCAATTTTTCTTAAAAATA
65 -AATTTAAAAAAGATATATTTTTAAGGAAAAGTTGAAAA-TATAAATTTTTC-T---CA-A
* * *
3303284 AAATTTTAAAAATTTTTCAAAAAATGTATTTTTAAGGAAAAGTTGAAAGTGTCAATTTTTTTTAA
1 AAA---T-AAAA-TTTTCAAAAAA-ATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAA
* * * * *
3303349 ATAA-AAATTTTAAAAAGGGTAT-TTTTTTAGGAAAAGTTGAAAATATAAATTTTTTTTAA
60 A-AATAAA-TTTAAAAAAGATATATTTTTAAGGAAAAGTTGAAAATATAAATTTTTCTCAA
*
3303408 AAATAAAATTTTCAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATTAATTTTTCTTAAAAATAA
1 AAATAAAATTTTCAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAA
* * *
3303473 ATTTAAAAAATATATATTTTTAAGGAAAAGTTGAAAATATCAATTTTTCTCGA
66 ATTTAAAAAAGATATATTTTTAAGGAAAAGTTGAAAATATAAATTTTTCTCAA
* * **
3303526 AAATAAAGA-TTTCAAAAAAA-ATATTTTGAGAAAAAACTGAAAGTATCAATTTT
1 AAATAAA-ATTTTCAAAAAAATAT-TTTTAAGGAAAAGTTGAAAGTATCAATTTT
3303579 CCTGGTATAA
Statistics
Matches: 249, Mismatches: 33, Indels: 33
0.79 0.10 0.10
Matches are distributed among these distances:
117 15 0.06
118 115 0.46
119 12 0.05
120 4 0.02
121 1 0.00
124 4 0.02
125 4 0.02
128 2 0.01
129 29 0.12
130 60 0.24
131 3 0.01
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (118 bp):
AAATAAAATTTTCAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAA
ATTTAAAAAAGATATATTTTTAAGGAAAAGTTGAAAATATAAATTTTTCTCAA
Found at i:3303518 original size:27 final size:26
Alignment explanation
Indices: 3303429--3303520 Score: 67
Period size: 27 Copynumber: 3.2 Consensus size: 26
3303419 TCAAAAAAAT
*
3303429 ATTTTTAAGGAAAAGTTGAAAGTATTA
1 ATTTTTAAGGAAAAGTTGAAAATA-TA
** * *
3303456 ATTTTTCTTAAAAATAAATTTAAAAAATATA
1 A--TTT-TTAAGGA-AAAGTT-GAAAATATA
3303487 TATTTTTAAGGAAAAGTTGAAAATATCA
1 -ATTTTTAAGGAAAAGTTGAAAATAT-A
3303515 ATTTTT
1 ATTTTT
3303521 CTCGAAAATA
Statistics
Matches: 49, Mismatches: 9, Indels: 14
0.68 0.12 0.19
Matches are distributed among these distances:
27 14 0.29
28 6 0.12
29 8 0.16
30 8 0.16
31 7 0.14
32 6 0.12
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (26 bp):
ATTTTTAAGGAAAAGTTGAAAATATA
Found at i:3310376 original size:20 final size:20
Alignment explanation
Indices: 3310351--3310399 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
3310341 CTTGTACTTC
*
3310351 TTTCCTTTTTCTTTGTTTAA
1 TTTCCTTTTTCTTTGTTCAA
3310371 TTTCCTTTTTCTTTGTTCAA
1 TTTCCTTTTTCTTTGTTCAA
*
3310391 TTTTCTTTT
1 TTTCCTTTT
3310400 GGTATACACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.08, C:0.16, G:0.04, T:0.71
Consensus pattern (20 bp):
TTTCCTTTTTCTTTGTTCAA
Found at i:3317370 original size:19 final size:19
Alignment explanation
Indices: 3317343--3317382 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
3317333 TTGCCCACCT
* * *
3317343 TAGTTATTTTTATAATCAA
1 TAGTAATTTCTATAACCAA
3317362 TAGTAATTTCTATAACCAA
1 TAGTAATTTCTATAACCAA
3317381 TA
1 TA
3317383 ATAAGATATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (19 bp):
TAGTAATTTCTATAACCAA
Found at i:3333480 original size:17 final size:17
Alignment explanation
Indices: 3333446--3333490 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
3333436 TAAATATTAA
* *
3333446 TAAATAAAAATCAGATT
1 TAAATAAAATTCAAATT
*
3333463 TAAATTAAATTCAAATT
1 TAAATAAAATTCAAATT
*
3333480 TTAATAAAATT
1 TAAATAAAATT
3333491 TGATTTGATA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (17 bp):
TAAATAAAATTCAAATT
Found at i:3333575 original size:21 final size:21
Alignment explanation
Indices: 3333544--3333595 Score: 95
Period size: 21 Copynumber: 2.4 Consensus size: 21
3333534 TTATATATTT
3333544 ATATATTTATATTTAAAAAATA
1 ATAT-TTTATATTTAAAAAATA
3333566 ATATTTTATATTTAAAAAATA
1 ATATTTTATATTTAAAAAATA
3333587 ATATTTTAT
1 ATATTTTAT
3333596 TAATTTCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 26 0.87
22 4 0.13
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATATTTTATATTTAAAAAATA
Found at i:3337144 original size:32 final size:32
Alignment explanation
Indices: 3337106--3337169 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
3337096 GGGCAATTTG
* **
3337106 CAGGCATAATAAGAAAATGAATTGAACATTCA
1 CAGGCATAACAAGAAAACCAATTGAACATTCA
*
3337138 CAGGCATAACAAGAAACCCAATTGAACATTCA
1 CAGGCATAACAAGAAAACCAATTGAACATTCA
3337170 ATGCAATAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.48, C:0.19, G:0.14, T:0.19
Consensus pattern (32 bp):
CAGGCATAACAAGAAAACCAATTGAACATTCA
Found at i:3352046 original size:12 final size:12
Alignment explanation
Indices: 3352029--3352060 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
3352019 ATCTTTATAA
*
3352029 TTTTATTTTGTT
1 TTTTATTTTGAT
3352041 TTTTATTTTGAT
1 TTTTATTTTGAT
3352053 TTTTATTT
1 TTTTATTT
3352061 AAAAATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.81
Consensus pattern (12 bp):
TTTTATTTTGAT
Found at i:3352317 original size:27 final size:23
Alignment explanation
Indices: 3352287--3352337 Score: 57
Period size: 23 Copynumber: 2.0 Consensus size: 23
3352277 TAATTACTAT
3352287 TTTTACATCTATATATATTATCATTAA
1 TTTTA-ATCT-TAT-TATTAT-ATTAA
*
3352314 TTTTATTCTTATTATTATATTAA
1 TTTTAATCTTATTATTATATTAA
3352337 T
1 T
3352338 AAATCTTACT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 6 0.26
24 6 0.26
25 3 0.13
26 3 0.13
27 5 0.22
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTTAATCTTATTATTATATTAA
Found at i:3362290 original size:24 final size:24
Alignment explanation
Indices: 3362238--3362284 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
3362228 GCGATATCTG
* *
3362238 CCATACTCAGGACTCCTGTGCCTC
1 CCATACTCAAGACTCCTGCGCCTC
*
3362262 CCATACTCAAGACTCTTGCGCCT
1 CCATACTCAAGACTCCTGCGCCT
3362285 GTCATAAGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.19, C:0.40, G:0.15, T:0.26
Consensus pattern (24 bp):
CCATACTCAAGACTCCTGCGCCTC
Found at i:3369211 original size:18 final size:18
Alignment explanation
Indices: 3369188--3369223 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
3369178 AATGCAAGGT
3369188 TTCTGTTTCTGCTT-TTGC
1 TTCTGTTT-TGCTTCTTGC
3369206 TTCTGTTTTGCTTCTTGC
1 TTCTGTTTTGCTTCTTGC
3369224 ACTAAAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.00, C:0.22, G:0.17, T:0.61
Consensus pattern (18 bp):
TTCTGTTTTGCTTCTTGC
Found at i:3374673 original size:21 final size:21
Alignment explanation
Indices: 3374647--3374689 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
3374637 CAGTTCCTTC
*
3374647 ATACTGTTGTCATCAATGAAG
1 ATACTGTTGCCATCAATGAAG
3374668 ATACTGTTGCCATCAATGAAG
1 ATACTGTTGCCATCAATGAAG
3374689 A
1 A
3374690 AAAAACATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (21 bp):
ATACTGTTGCCATCAATGAAG
Found at i:3375669 original size:12 final size:12
Alignment explanation
Indices: 3375652--3375676 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3375642 ATTTTTAAGA
3375652 GTGTAAGCAAGG
1 GTGTAAGCAAGG
3375664 GTGTAAGCAAGG
1 GTGTAAGCAAGG
3375676 G
1 G
3375677 ATTGTTTCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.44, T:0.16
Consensus pattern (12 bp):
GTGTAAGCAAGG
Found at i:3382810 original size:2 final size:2
Alignment explanation
Indices: 3382803--3382837 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
3382793 TTCAACAACA
3382803 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
3382838 AACCTGAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3393436 original size:21 final size:21
Alignment explanation
Indices: 3393410--3393469 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
3393400 TACTTTAAAA
3393410 ATTAACAACTTTGAAAATAAC
1 ATTAACAACTTTGAAAATAAC
3393431 ATTAACAA--TT-AAAAT---
1 ATTAACAACTTTGAAAATAAC
3393446 A--AACAACTTTGAAAATAAC
1 ATTAACAACTTTGAAAATAAC
3393465 ATTAA
1 ATTAA
3393470 TCAAATTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 16
0.66 0.00 0.34
Matches are distributed among these distances:
13 5 0.16
15 3 0.10
16 5 0.16
18 5 0.16
19 3 0.10
21 10 0.32
ACGTcount: A:0.57, C:0.12, G:0.03, T:0.28
Consensus pattern (21 bp):
ATTAACAACTTTGAAAATAAC
Found at i:3393451 original size:34 final size:36
Alignment explanation
Indices: 3393407--3393480 Score: 125
Period size: 34 Copynumber: 2.1 Consensus size: 36
3393397 AAATACTTTA
*
3393407 AAAATTAACAACTTTGAAAATAACATTAA-C-AATT
1 AAAATAAACAACTTTGAAAATAACATTAATCAAATT
3393441 AAAATAAACAACTTTGAAAATAACATTAATCAAATT
1 AAAATAAACAACTTTGAAAATAACATTAATCAAATT
3393477 AAAA
1 AAAA
3393481 AGAAAAAGGT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
34 28 0.76
35 1 0.03
36 8 0.22
ACGTcount: A:0.59, C:0.11, G:0.03, T:0.27
Consensus pattern (36 bp):
AAAATAAACAACTTTGAAAATAACATTAATCAAATT
Found at i:3393462 original size:16 final size:16
Alignment explanation
Indices: 3393401--3393463 Score: 56
Period size: 16 Copynumber: 3.8 Consensus size: 16
3393391 TTTCTAAAAT
* *
3393401 ACTTTAAAAATTAACA
1 ACTTTGAAAATAAACA
*
3393417 ACTTTGAAAATAACATTA
1 ACTTTGAAAATAA-A-CA
*
3393435 ACAATT-AAAATAAACA
1 AC-TTTGAAAATAAACA
3393451 ACTTTGAAAATAA
1 ACTTTGAAAATAA
3393464 CATTAATCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
15 2 0.05
16 21 0.57
17 2 0.05
18 10 0.27
19 2 0.05
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.29
Consensus pattern (16 bp):
ACTTTGAAAATAAACA
Found at i:3395018 original size:14 final size:14
Alignment explanation
Indices: 3394999--3395032 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
3394989 TTAAAAAATT
3394999 AATTAAA-TCAATC
1 AATTAAATTCAATC
3395012 AAATTAAATTCAATC
1 -AATTAAATTCAATC
3395027 AATTAA
1 AATTAA
3395033 TTTTTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (14 bp):
AATTAAATTCAATC
Found at i:3395026 original size:19 final size:18
Alignment explanation
Indices: 3394994--3395029 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
3394984 ATTAATTAAA
3394994 AAATTAATTAAATCAATC
1 AAATTAATTAAATCAATC
*
3395012 AAATTAAATTCAATCAAT
1 AAATT-AATTAAATCAAT
3395030 TAATTTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATTAATTAAATCAATC
Found at i:3400654 original size:21 final size:19
Alignment explanation
Indices: 3400613--3400673 Score: 72
Period size: 19 Copynumber: 3.2 Consensus size: 19
3400603 TAATTATAAT
*
3400613 TTAATT-TTAATA-AATAA
1 TTAATTATTAATATAATAC
3400630 TTAATTATATAACTATAATAC
1 TTAATTAT-TAA-TATAATAC
*
3400651 TTAATTATTAATATATTAC
1 TTAATTATTAATATAATAC
3400670 TTAA
1 TTAA
3400674 GGGAAACCCC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
17 6 0.16
18 1 0.03
19 14 0.37
20 5 0.13
21 12 0.32
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (19 bp):
TTAATTATTAATATAATAC
Found at i:3402563 original size:43 final size:43
Alignment explanation
Indices: 3402476--3402563 Score: 97
Period size: 43 Copynumber: 2.0 Consensus size: 43
3402466 AAAATGCGTC
* * *
3402476 TTATTTTATTTTTCATTACCAAAAACATTTTAAGTTTTTGTTT
1 TTATTATATTTTTCATTACCAAAAACATTTTAACTTTATGTTT
* * * *
3402519 TTATTATATTTTTTATTATCAAACACATTTTTACTCTTAT-TTT
1 TTATTATATTTTTCATTACCAAAAACATTTTAACT-TTATGTTT
3402562 TT
1 TT
3402564 GTTTTTTTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
43 34 0.92
44 3 0.08
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.60
Consensus pattern (43 bp):
TTATTATATTTTTCATTACCAAAAACATTTTAACTTTATGTTT
Found at i:3409890 original size:24 final size:24
Alignment explanation
Indices: 3409857--3409933 Score: 67
Period size: 24 Copynumber: 3.5 Consensus size: 24
3409847 ATCACTGCGT
3409857 CAGTGCCAACTTCTCCAGCCAAGC
1 CAGTGCCAACTTCTCCAGCCAAGC
* * *
3409881 CAGTGGCAACTACT---GCC---T
1 CAGTGCCAACTTCTCCAGCCAAGC
*
3409899 CTGTGCCAACTTCTCCAGCCAAGC
1 CAGTGCCAACTTCTCCAGCCAAGC
*
3409923 CAGTGGCAACT
1 CAGTGCCAACT
3409934 ACCGCCTCTG
Statistics
Matches: 38, Mismatches: 9, Indels: 12
0.64 0.15 0.20
Matches are distributed among these distances:
18 11 0.29
21 6 0.16
24 21 0.55
ACGTcount: A:0.23, C:0.38, G:0.19, T:0.19
Consensus pattern (24 bp):
CAGTGCCAACTTCTCCAGCCAAGC
Found at i:3409896 original size:42 final size:42
Alignment explanation
Indices: 3409862--3410061 Score: 319
Period size: 42 Copynumber: 4.8 Consensus size: 42
3409852 TGCGTCAGTG
* *
3409862 CCAACTTCTCCAGCCAAGCCAGTGGCAACTACTGCCTCTGTG
1 CCAACTTCTCCAGCCAAGCCAGTGGCAACTACCGCCTCTGTA
3409904 CCAACTTCTCCAGCCAAGCCAGTGGCAACTACCGCCTCTGTA
1 CCAACTTCTCCAGCCAAGCCAGTGGCAACTACCGCCTCTGTA
* *
3409946 CCAACTTCTCCAGCCAAGCCACTGGCAACAACCGCCTCTGTA
1 CCAACTTCTCCAGCCAAGCCAGTGGCAACTACCGCCTCTGTA
* *
3409988 CCAACTTCTCCAGCCAAGCCACTGGCAACAACCGCCTCTGTA
1 CCAACTTCTCCAGCCAAGCCAGTGGCAACTACCGCCTCTGTA
* **
3410030 CCAACTTCTCCAGCCAAGACAGTTCCAACTAC
1 CCAACTTCTCCAGCCAAGCCAGTGGCAACTAC
3410062 AACATCAGTG
Statistics
Matches: 149, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 149 1.00
ACGTcount: A:0.26, C:0.41, G:0.15, T:0.18
Consensus pattern (42 bp):
CCAACTTCTCCAGCCAAGCCAGTGGCAACTACCGCCTCTGTA
Found at i:3415637 original size:37 final size:37
Alignment explanation
Indices: 3415554--3415637 Score: 95
Period size: 37 Copynumber: 2.3 Consensus size: 37
3415544 TTGTGAAAAT
*
3415554 AATTTATTT-TCAAAAATATATTCTAATATGTTGATAA
1 AATTTATTTGTCAAAAATATATTCTAATAGGTTGA-AA
*
3415591 AATTT-TTTGTCAAAAAT-TATTCTTAGTAGGATTG-AA
1 AATTTATTTGTCAAAAATATATTC-TAATAGG-TTGAAA
3415627 AATTTATTTGT
1 AATTTATTTGT
3415638 TCAAGAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
36 15 0.37
37 23 0.56
38 3 0.07
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.48
Consensus pattern (37 bp):
AATTTATTTGTCAAAAATATATTCTAATAGGTTGAAA
Found at i:3415837 original size:20 final size:20
Alignment explanation
Indices: 3415791--3415862 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
3415781 ATTAATATTA
** *
3415791 TATCATGCAATAATAACAAAC
1 TATCATGCAATAA-AAGTAAT
* *
3415812 TATCATGCATTAAAATTAAT
1 TATCATGCAATAAAAGTAAT
*
3415832 TATCATGCAATAATAGTAAT
1 TATCATGCAATAAAAGTAAT
*
3415852 TATCATTCAAT
1 TATCATGCAAT
3415863 TAAATATAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
20 31 0.72
21 12 0.28
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.35
Consensus pattern (20 bp):
TATCATGCAATAAAAGTAAT
Found at i:3415865 original size:41 final size:40
Alignment explanation
Indices: 3415767--3415866 Score: 105
Period size: 41 Copynumber: 2.5 Consensus size: 40
3415757 AAATAAACAA
* *
3415767 AAATTATCATGTAAATTAATATTATATCATGCAATAATAAC
1 AAATTATCAT-TCAATTAAAATTATATCATGCAATAATAAC
* * *
3415808 AAACTATCATGC-ATTAAAATTAATTATCATGCAATAAT-AG
1 AAATTATCATTCAATTAAAATT-A-TATCATGCAATAATAAC
*
3415848 TAATTATCATTCAATTAAA
1 AAATTATCATTCAATTAAA
3415867 TATAATAATG
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
39 8 0.17
40 11 0.23
41 29 0.60
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.36
Consensus pattern (40 bp):
AAATTATCATTCAATTAAAATTATATCATGCAATAATAAC
Found at i:3416024 original size:14 final size:13
Alignment explanation
Indices: 3416004--3416046 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
3415994 AAATAATCAT
3416004 AATAAATATTAAA
1 AATAAATATTAAA
3416017 ATATAAATA-TAAA
1 A-ATAAATATTAAA
3416030 AATAATATATATAAA
1 AATAA-ATAT-TAAA
3416045 AA
1 AA
3416047 AAGATAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 4 0.15
13 9 0.35
14 7 0.27
15 6 0.23
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AATAAATATTAAA
Found at i:3416036 original size:17 final size:16
Alignment explanation
Indices: 3416014--3416080 Score: 52
Period size: 15 Copynumber: 4.2 Consensus size: 16
3416004 AATAAATATT
3416014 AAAATATAAATATAAA
1 AAAATATAAATATAAA
3416030 AATAATAT--ATATAAA
1 AA-AATATAAATATAAA
*
3416045 AAAAGATAAA-ATAAGA
1 AAAATATAAATATAA-A
*
3416061 TAAAACAATAAA-ATAAA
1 -AAAA-TATAAATATAAA
3416078 AAA
1 AAA
3416081 CAAACAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
14 4 0.09
15 13 0.30
16 7 0.16
17 10 0.23
18 9 0.21
ACGTcount: A:0.75, C:0.01, G:0.03, T:0.21
Consensus pattern (16 bp):
AAAATATAAATATAAA
Found at i:3416043 original size:15 final size:15
Alignment explanation
Indices: 3416002--3416046 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
3415992 TCAAATAATC
*
3416002 ATAATAAATATTAAA
1 ATAATAAATATAAAA
3416017 AT-ATAAATATAAAA
1 ATAATAAATATAAAA
*
3416031 ATAATATATATAAAA
1 ATAATAAATATAAAA
3416046 A
1 A
3416047 AAGATAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
14 13 0.48
15 14 0.52
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
ATAATAAATATAAAA
Found at i:3416079 original size:24 final size:26
Alignment explanation
Indices: 3416019--3416079 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 26
3416009 ATATTAAAAT
* *
3416019 ATAAATATAAAAATAATATATATAAA
1 ATAAAGATAAAAATAAGATATATAAA
3416045 A-AAAGAT-AAAATAAGATA-A-AACA
1 ATAAAGATAAAAATAAGATATATAA-A
3416068 ATAAA-ATAAAAA
1 ATAAAGATAAAAA
3416080 ACAAACAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
22 2 0.07
23 5 0.17
24 17 0.57
25 5 0.17
26 1 0.03
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.21
Consensus pattern (26 bp):
ATAAAGATAAAAATAAGATATATAAA
Found at i:3416087 original size:19 final size:18
Alignment explanation
Indices: 3416050--3416093 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
3416040 ATAAAAAAAG
* *
3416050 ATAAAATAAGATAAAACA
1 ATAAAATAAAAAAAAACA
3416068 ATAAAATAAAAAACAAACA
1 ATAAAATAAAAAA-AAACA
*
3416087 AAAAAAT
1 ATAAAAT
3416094 CATAGCAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.77, C:0.07, G:0.02, T:0.14
Consensus pattern (18 bp):
ATAAAATAAAAAAAAACA
Found at i:3418013 original size:12 final size:12
Alignment explanation
Indices: 3417990--3418025 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
3417980 CATACATATA
*
3417990 TATATATATATG
1 TATATATGTATG
*
3418002 TATGTATGTATG
1 TATATATGTATG
3418014 TATATATGTATG
1 TATATATGTATG
3418026 AATTGAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (12 bp):
TATATATGTATG
Found at i:3419969 original size:2 final size:2
Alignment explanation
Indices: 3419962--3420005 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
3419952 CCTAACTTTG
*
3419962 TA TA TA TA TA TA TA TA T- TA TA TA CA 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 TA TA TA
3420003 TA T
1 TA T
3420006 CTTCTTTTGA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3435377 original size:15 final size:16
Alignment explanation
Indices: 3435357--3435389 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3435347 GTTGTTAGGG
*
3435357 AAATGA-AAGTCTACT
1 AAATGACAAATCTACT
3435372 AAATGACAAATCTACT
1 AAATGACAAATCTACT
3435388 AA
1 AA
3435390 TACTATTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.52, C:0.15, G:0.09, T:0.24
Consensus pattern (16 bp):
AAATGACAAATCTACT
Found at i:3447284 original size:27 final size:29
Alignment explanation
Indices: 3447254--3447312 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
3447244 TCTGCACACT
3447254 AAAGAGCAAAGA-TGAA-TTGGCCAAAAA
1 AAAGAGCAAAGACTGAATTTGGCCAAAAA
*
3447281 AAAGAGCAAAGACTGAATTTGGTCAAAAA
1 AAAGAGCAAAGACTGAATTTGGCCAAAAA
3447310 AAA
1 AAA
3447313 AAAAAAAGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 12 0.41
28 4 0.14
29 13 0.45
ACGTcount: A:0.56, C:0.10, G:0.20, T:0.14
Consensus pattern (29 bp):
AAAGAGCAAAGACTGAATTTGGCCAAAAA
Found at i:3447320 original size:29 final size:27
Alignment explanation
Indices: 3447261--3447320 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
3447251 ACTAAAGAGC
* **
3447261 AAAGATGAATTGGCCAAAAAAAAGAGC
1 AAAGATGAATTGGCCAAAAAAAAAAAA
*
3447288 AAAGACTGAATTTGGTCAAAAAAAAAAAA
1 AAAGA-TGAA-TTGGCCAAAAAAAAAAAA
3447317 AAAG
1 AAAG
3447321 CAAAGACTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 5 0.19
28 4 0.15
29 18 0.67
ACGTcount: A:0.60, C:0.08, G:0.18, T:0.13
Consensus pattern (27 bp):
AAAGATGAATTGGCCAAAAAAAAAAAA
Found at i:3449674 original size:5 final size:5
Alignment explanation
Indices: 3449664--3449694 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
3449654 AGGGAGACAA
3449664 TGGAC TGGAC TGGAC TGGAC TGGAC TGGAC T
1 TGGAC TGGAC TGGAC TGGAC TGGAC TGGAC T
3449695 ATGCGAGTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.19, G:0.39, T:0.23
Consensus pattern (5 bp):
TGGAC
Found at i:3449964 original size:29 final size:30
Alignment explanation
Indices: 3449916--3449999 Score: 86
Period size: 29 Copynumber: 2.9 Consensus size: 30
3449906 TTTATTACAT
* *
3449916 TCAAAT-AATTTTTAATTTTTAATTTTAAA
1 TCAAATAAATCTTTAACTTTTAATTTTAAA
*
3449945 T-AAATAAATCTTTAACTTTTAA-TTTATA
1 TCAAATAAATCTTTAACTTTTAATTTTAAA
*
3449973 TCGAAATAAA-CTCTTACCTTTTAATTT
1 TC-AAATAAATCT-TTAACTTTTAATTT
3450000 ATACTTAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
28 10 0.22
29 17 0.37
30 17 0.37
31 2 0.04
ACGTcount: A:0.39, C:0.10, G:0.01, T:0.50
Consensus pattern (30 bp):
TCAAATAAATCTTTAACTTTTAATTTTAAA
Found at i:3450010 original size:30 final size:29
Alignment explanation
Indices: 3449862--3450020 Score: 96
Period size: 30 Copynumber: 5.4 Consensus size: 29
3449852 ATAATAAAAA
*
3449862 AAATCTTTAAATTTTAATATCT-TACTTAAAT
1 AAATCTTTAACTTTTAAT-T-TATA-TTAAAT
* * *
3449893 AAATTTTTATA-TTTTTA-TTACATTCAAAT
1 AAATCTTTA-ACTTTTAATTTATATT-AAAT
* * *
3449922 -AATTTTTAATTTTTAATTT-TAAATAAAT
1 AAATCTTTAACTTTTAATTTAT-ATTAAAT
*
3449950 AAATCTTTAACTTTTAATTTATATCGAAAT
1 AAATCTTTAACTTTTAATTTATAT-TAAAT
*
3449980 AAA-CTCTTACCTTTTAATTTATACTTAAAT
1 AAATCT-TTAACTTTTAATTTATA-TTAAAT
* *
3450010 AATTCATTAAC
1 AAATCTTTAAC
3450021 ATAAATAAAT
Statistics
Matches: 101, Mismatches: 15, Indels: 25
0.72 0.11 0.18
Matches are distributed among these distances:
27 1 0.01
28 20 0.20
29 30 0.30
30 34 0.34
31 15 0.15
32 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.01, T:0.50
Consensus pattern (29 bp):
AAATCTTTAACTTTTAATTTATATTAAAT
Found at i:3450401 original size:18 final size:18
Alignment explanation
Indices: 3450377--3450419 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
3450367 TAAACAAAAA
3450377 AAATCCCAGGCCTCGTTT
1 AAATCCCAGGCCTCGTTT
*
3450395 GAATCCCAGGCCTCGTTT
1 AAATCCCAGGCCTCGTTT
3450413 AAATCCC
1 AAATCCC
3450420 TCCAATTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.23, C:0.35, G:0.16, T:0.26
Consensus pattern (18 bp):
AAATCCCAGGCCTCGTTT
Found at i:3460218 original size:20 final size:20
Alignment explanation
Indices: 3460189--3460232 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
3460179 CTCCCATCTC
3460189 TCTCTATCTCTCTTTCCCTG
1 TCTCTATCTCTCTTTCCCTG
* *
3460209 TCTCTGTCTCTCTTTCTCTG
1 TCTCTATCTCTCTTTCCCTG
3460229 TCTC
1 TCTC
3460233 AGTCCCCCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.02, C:0.39, G:0.07, T:0.52
Consensus pattern (20 bp):
TCTCTATCTCTCTTTCCCTG
Found at i:3461514 original size:15 final size:15
Alignment explanation
Indices: 3461490--3461526 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
3461480 AATGACAGCT
*
3461490 TGTGCAAGTAAGAGC
1 TGTGCCAGTAAGAGC
3461505 TGTGCCAGTAAGAGC
1 TGTGCCAGTAAGAGC
*
3461520 CGTGCCA
1 TGTGCCA
3461527 ATGGAAGTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.27, C:0.22, G:0.32, T:0.19
Consensus pattern (15 bp):
TGTGCCAGTAAGAGC
Found at i:3469949 original size:2 final size:2
Alignment explanation
Indices: 3469942--3469966 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3469932 TCTTTAGCTT
3469942 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 T
3469967 TTATTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3469983 original size:14 final size:14
Alignment explanation
Indices: 3469954--3469992 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
3469944 TATATATATA
* *
3469954 TATATATATATATT
1 TATATATTTATTTT
*
3469968 TATTTATTTATTTT
1 TATATATTTATTTT
3469982 TATATATTTAT
1 TATATATTTAT
3469993 CTTCCCTAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TATATATTTATTTT
Found at i:3470901 original size:5 final size:5
Alignment explanation
Indices: 3470891--3470946 Score: 76
Period size: 5 Copynumber: 11.0 Consensus size: 5
3470881 GTAACTGCCT
* * *
3470891 TTTTC TTTTC TTTTG TTATTC TTTTC TCTTC TTTTC TTTCC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TT-TTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
3470942 TTTTC
1 TTTTC
3470947 AATGCTAAAG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
5 40 0.91
6 4 0.09
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.75
Consensus pattern (5 bp):
TTTTC
Found at i:3470927 original size:26 final size:25
Alignment explanation
Indices: 3470893--3470942 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
3470883 AACTGCCTTT
**
3470893 TTCTTTTCTTTTGTTATTCTTTTCTC
1 TTCTTTTCTTTCCTT-TTCTTTTCTC
3470919 TTCTTTTCTTTCCTTTTCTTTTCT
1 TTCTTTTCTTTCCTTTTCTTTTCT
3470943 TTTCAATGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.02, C:0.22, G:0.02, T:0.74
Consensus pattern (25 bp):
TTCTTTTCTTTCCTTTTCTTTTCTC
Found at i:3475906 original size:2 final size:2
Alignment explanation
Indices: 3475899--3475925 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3475889 ACCCTTACAT
3475899 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
3475926 AATATATTTC
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:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:3497560 original size:4 final size:4
Alignment explanation
Indices: 3497551--3497575 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
3497541 TAGCAATCCC
3497551 TTAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA T
3497576 CTTCCGTCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:3500062 original size:21 final size:22
Alignment explanation
Indices: 3500036--3500076 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
3500026 CAAAATGAGT
*
3500036 ATTTTATT-TTTTTATTTGAAA
1 ATTTTATTAATTTTATTTGAAA
3500057 ATTTTATTAATTTTATTTGA
1 ATTTTATTAATTTTATTTGA
3500077 TTTCCTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (22 bp):
ATTTTATTAATTTTATTTGAAA
Found at i:3501247 original size:17 final size:17
Alignment explanation
Indices: 3501225--3501257 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
3501215 GGGGACTGTG
*
3501225 TTTTTGGATTTTTTTTT
1 TTTTTGAATTTTTTTTT
3501242 TTTTTGAATTTTTTTT
1 TTTTTGAATTTTTTTT
3501258 GCAGGGTATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.82
Consensus pattern (17 bp):
TTTTTGAATTTTTTTTT
Found at i:3501551 original size:16 final size:17
Alignment explanation
Indices: 3501525--3501557 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
3501515 AGGAAAAAAA
3501525 AAAAAATATAAAATAAT
1 AAAAAATATAAAATAAT
3501542 AAAAAA-ATAAAATAAT
1 AAAAAATATAAAATAAT
3501558 GTTTACAGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAAAATATAAAATAAT
Found at i:3501800 original size:44 final size:43
Alignment explanation
Indices: 3501702--3501806 Score: 111
Period size: 44 Copynumber: 2.4 Consensus size: 43
3501692 GTTCAATGAC
* *
3501702 ATTTTTAAATATTTAAAAGGCTCCTCTGAGCAAAAGCTCAACA
1 ATTTTTAAAAATTTAAAAGGCTCCTCTAAGCAAAAGCTCAACA
* * * * * * *
3501745 ACTTTTGAAAATTTAAAGAGGTTCTTCTAAGCAAAATCTTAACG
1 ATTTTTAAAAATTTAAA-AGGCTCCTCTAAGCAAAAGCTCAACA
*
3501789 ATTTTTAAAAATTAAAAA
1 ATTTTTAAAAATTTAAAA
3501807 AAAAAGCTCT
Statistics
Matches: 49, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
43 15 0.31
44 34 0.69
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.33
Consensus pattern (43 bp):
ATTTTTAAAAATTTAAAAGGCTCCTCTAAGCAAAAGCTCAACA
Found at i:3501865 original size:50 final size:49
Alignment explanation
Indices: 3501806--3501937 Score: 169
Period size: 50 Copynumber: 2.7 Consensus size: 49
3501796 AAAATTAAAA
* *
3501806 AAAAAAGCTCTTCTAAGTAAAGGCTCAATAACTTTAAAATTCATCATCCTG
1 AAAAAAGCTCTTCTAAGTAAAGGCTCAACAACTTTAAAAAT-ATCAT-CTG
* *
3501857 -AAAAAGCTCCTCTAAGTAAAGGTTCAACAACTTTAAAAATATCATCTG
1 AAAAAAGCTCTTCTAAGTAAAGGCTCAACAACTTTAAAAATATCATCTG
* *
3501905 AAAAAAGCT-TCTCTAAGTAGAGGCTTAACAACT
1 AAAAAAGCTCT-TCTAAGTAAAGGCTCAACAACT
3501938 CTTCTAAACA
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
48 3 0.04
49 32 0.45
50 36 0.51
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.27
Consensus pattern (49 bp):
AAAAAAGCTCTTCTAAGTAAAGGCTCAACAACTTTAAAAATATCATCTG
Found at i:3502015 original size:50 final size:47
Alignment explanation
Indices: 3501940--3502673 Score: 548
Period size: 50 Copynumber: 15.6 Consensus size: 47
3501930 TAACAACTCT
* * *
3501940 TCTAAACAGAGGTTCAACAACTTTAAAAAATCTTATCTGAAAAATACTCC
1 TCTAAGCAGAGGCTCAACAACTTT-AAAAAT-TTATCTGAAAAA-GCTCC
** *
3501990 TCTAAGCAGAAACTCAACAACTTTAAAATTGATTATCCTGAAAAAGCTCC
1 TCTAAGCAGAGGCTCAACAACTTTAAAAAT--TTAT-CTGAAAAAGCTCC
* * * *
3502040 TTTAAGCAGAAGCTCAACAACTTTAAAAATCTTATTTGAAAAAGGTTCC
1 TCTAAGCAGAGGCTCAACAACTTTAAAAAT-TTATCTGAAAAA-GCTCC
* * * *
3502089 TCTAAGCAGAGACTCAACAATTTTAAAAAATTTA----AAAAGGCTCA
1 TCTAAGCAGAGGCTCAACAACTTT-AAAAATTTATCTGAAAAAGCTCC
* * *
3502133 TTTAAGTAGAGGCTCAACAAC-TTAAAAATTTATCATCCTGAAAAAGCTTC
1 TCTAAGCAGAGGCTCAACAACTTTAAAAA-TT-T-AT-CTGAAAAAGCTCC
* *
3502183 TCTAAGCAGAGGCTCAACAATTTTAAAAATCTTATTTGGAAAAAGCTCC
1 TCTAAGCAGAGGCTCAACAACTTTAAAAAT-TTATCT-GAAAAAGCTCC
*
3502232 TCTAAGCAGAGGCTCAACAACTTTAAAAAATTTA----AAAATGCTCC
1 TCTAAGCAGAGGCTCAACAACTTT-AAAAATTTATCTGAAAAAGCTCC
* * *
3502276 TTTAAGCAGAGGCTCTACAACTTT-AAAATTCATCTTGAAAAAGCTCC
1 TCTAAGCAGAGGCTCAACAACTTTAAAAATTTATC-TGAAAAAGCTCC
** * * **
3502323 TCTAAGCAGAGATTCGATAACTTTAAAAA-TTA----AAAAAGCTTT
1 TCTAAGCAGAGGCTCAACAACTTTAAAAATTTATCTGAAAAAGCTCC
** *
3502365 TCTAAGCAGAGGCTCAACAACTTT-AAAATTCGTCTTGAAAAAGCTCA
1 TCTAAGCAGAGGCTCAACAACTTTAAAAATTTATC-TGAAAAAGCTCC
* * * * *
3502412 TTTAAGCAGAGACTCAACAACTTTAAGAAATTTA----AAAAGGTTCA
1 TCTAAGCAGAGGCTCAACAACTTTAA-AAATTTATCTGAAAAAGCTCC
* * * * *
3502456 TCCAAGCAAAGGCTCAATAACTTTAAAAAATTTA----AAAAGGTTCC
1 TCTAAGCAGAGGCTCAACAACTTT-AAAAATTTATCTGAAAAAGCTCC
* * *
3502500 TATAAGCAGAAGCTCAACAACTTT-AAAATTCATCATCCT-AGAAAAGCTCT
1 TCTAAGCAGAGGCTCAACAACTTTAAAAATT--T-AT-CTGA-AAAAGCTCC
* **
3502550 TCTAAGCAGAGGCTCCACAACTTTAAAAATTTCATCTGAAAAAGCTTT
1 TCTAAGCAGAGGCTCAACAACTTTAAAAATTT-ATCTGAAAAAGCTCC
* * * *
3502598 TTTAAGTAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCT
1 TCTAAGCAGAGGCTCAACAACTTTAAAAATTTATC-TGAAAAAGCTCC
* * *
3502646 TATAAGTAAAGGCTCAACAACTTTAAAA
1 TCTAAGCAGAGGCTCAACAACTTTAAAA
3502674 GTCTCATATG
Statistics
Matches: 557, Mismatches: 85, Indels: 86
0.77 0.12 0.12
Matches are distributed among these distances:
41 4 0.01
42 47 0.08
43 4 0.01
44 115 0.21
45 8 0.01
47 63 0.11
48 88 0.16
49 85 0.15
50 121 0.22
51 22 0.04
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.28
Consensus pattern (47 bp):
TCTAAGCAGAGGCTCAACAACTTTAAAAATTTATCTGAAAAAGCTCC
Found at i:3502208 original size:143 final size:142
Alignment explanation
Indices: 3501992--3502673 Score: 576
Period size: 143 Copynumber: 4.9 Consensus size: 142
3501982 AATACTCCTC
** * * * * *
3501992 TAAGCAGAAACTCAACAACTTTAAAATTGATTATCCTGAAAAAGCTCCTTTAAGCAGAAGCTCAA
1 TAAGCAGAGGCTCAACAACTTAAAAATT-ATCATCCTGAAAAAGCTTCTCTAAGCAGAGGCTCAA
*
3502057 CAACTTTAAAAATCTTATTTGAAAAAGGTTCCTCTAAGCAGAGACTCAACAATTTTAAAA-AAT-
65 CAACTTTAAAAAT-TTATTTGAAAAAGGTTCCTCTAAGCAGAGACTCAACAACTTTAAAATAATC
3502120 TTAAAAAGGCTCATT
129 TTAAAAA-GCTCATT
*
3502135 TAAGTAGAGGCTCAACAACTTAAAAATTTATCATCCTGAAAAAGCTTCTCTAAGCAGAGGCTCAA
1 TAAGCAGAGGCTCAACAACTTAAAAA-TTATCATCCTGAAAAAGCTTCTCTAAGCAGAGGCTCAA
* * *
3502200 CAATTTTAAAAATCTTATTTGGAAAAA-GCTCCTCTAAGCAGAGGCTCAACAACTTTAAAA-AAT
65 CAACTTTAAAAAT-TTATTT-GAAAAAGGTTCCTCTAAGCAGAGACTCAACAACTTTAAAATAAT
*
3502263 -TTAAAAATGCTCCTT
128 CTTAAAAA-GCTCATT
* * * * ** * *
3502278 TAAGCAGAGGCTCTACAACTTTAAAA-T-TCATCTTGAAAAAGCTCCTCTAAGCAGAGATTCGAT
1 TAAGCAGAGGCTCAACAACTTAAAAATTATCATCCTGAAAAAGCTTCTCTAAGCAGAGGCTCAAC
* * * **
3502341 AACTTTAAAAA-TTA----AAAAAGCTT-TTCTAAGCAGAGGCTCAACAACTTTAAAATTCGTCT
66 AACTTTAAAAATTTATTTGAAAAAGGTTCCTCTAAGCAGAGACTCAACAACTTTAAAA-TAATCT
3502400 TGAAAAAGCTCATT
130 T-AAAAAGCTCATT
* * * * *
3502414 TAAGCAGAGACTCAACAACTTTAAGAA--AT--T--T-AAAAAGGTTCATCCAAGCAAAGGCTCA
1 TAAGCAGAGGCTCAACAAC-TTAAAAATTATCATCCTGAAAAAGCTTC-TCTAAGCAGAGGCTCA
* *
3502472 ATAACTTTAAAAA---ATTT-AAAAAGGTTCCTATAAGCAGA-AGCTCAACAACTTTAAAATTCA
64 ACAACTTTAAAAATTTATTTGAAAAAGGTTCCTCTAAGCAGAGA-CTCAACAACTTTAAAA-T-A
*
3502532 TCATCCTAGAAAAGCTC-TT
126 --ATCTTA-AAAAGCTCATT
* * * *
3502551 CTAAGCAGAGGCTCCACAACTTTAAAAATT-TCAT-CTGAAAAAGCTTTTTTAAGTAGAGGCTCA
1 -TAAGCAGAGGCTCAACAAC-TTAAAAATTATCATCCTGAAAAAGCTTCTCTAAGCAGAGGCTCA
* * * * * * *
3502614 ACAACTTTAAAAATTCATCTTGAAAAA-GCTCTTATAAGTAAAGGCTCAACAACTTTAAAA
64 ACAACTTTAAAAATTTAT-TTGAAAAAGGTTCCTCTAAGCAGAGACTCAACAACTTTAAAA
3502674 GTCTCATATG
Statistics
Matches: 444, Mismatches: 63, Indels: 61
0.78 0.11 0.11
Matches are distributed among these distances:
131 1 0.00
132 8 0.02
133 58 0.13
134 9 0.02
135 29 0.07
136 25 0.06
137 14 0.03
138 38 0.09
139 1 0.00
140 40 0.09
141 2 0.00
142 25 0.06
143 150 0.34
144 8 0.02
145 2 0.00
146 29 0.07
147 5 0.01
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.28
Consensus pattern (142 bp):
TAAGCAGAGGCTCAACAACTTAAAAATTATCATCCTGAAAAAGCTTCTCTAAGCAGAGGCTCAAC
AACTTTAAAAATTTATTTGAAAAAGGTTCCTCTAAGCAGAGACTCAACAACTTTAAAATAATCTT
AAAAAGCTCATT
Found at i:3502345 original size:47 final size:46
Alignment explanation
Indices: 3501940--3502673 Score: 523
Period size: 44 Copynumber: 15.6 Consensus size: 46
3501930 TAACAACTCT
* * * * *
3501940 TCTAAACAGAGGTTCAACAACTTTAAAAAATCTTATCTGAAAAATACTCC
1 TCTAAGCAGAGGCTCAACAACTTT--AAAAT-TCATTTGAAAAA-GCTCC
** *
3501990 TCTAAGCAGAAACTCAACAACTTTAAAATTGATTATCCTGAAAAAGCTCC
1 TCTAAGCAGAGGCTCAACAACTTTAAAATTCA-T-T--TGAAAAAGCTCC
* * * *
3502040 TTTAAGCAGAAGCTCAACAACTTTAAAAATCTTATTTGAAAAAGGTTCC
1 TCTAAGCAGAGGCTCAACAACTTT-AAAAT-TCATTTGAAAAA-GCTCC
* * * *
3502089 TCTAAGCAGAGACTCAACAATTTTAAAA--AATTT-AAAAAGGCTCA
1 TCTAAGCAGAGGCTCAACAACTTTAAAATTCATTTGAAAAA-GCTCC
* * * * *
3502133 TTTAAGTAGAGGCTCAACAACTTAAAAATTTATCATCCTGAAAAAGCTTC
1 TCTAAGCAGAGGCTCAACAACTTTAAAA--T-TCAT-TTGAAAAAGCTCC
* *
3502183 TCTAAGCAGAGGCTCAACAATTTTAAAAATCTTATTTGGAAAAAGCTCC
1 TCTAAGCAGAGGCTCAACAACTTT-AAAAT-TCATTT-GAAAAAGCTCC
*
3502232 TCTAAGCAGAGGCTCAACAACTTTAAAA--AATTT-AAAAATGCTCC
1 TCTAAGCAGAGGCTCAACAACTTTAAAATTCATTTGAAAAA-GCTCC
* *
3502276 TTTAAGCAGAGGCTCTACAACTTTAAAATTCATCTTGAAAAAGCTCC
1 TCTAAGCAGAGGCTCAACAACTTTAAAATTCAT-TTGAAAAAGCTCC
** * * * **
3502323 TCTAAGCAGAGATTCGATAACTTTAAAA---A-TTAAAAAAGCTTT
1 TCTAAGCAGAGGCTCAACAACTTTAAAATTCATTTGAAAAAGCTCC
* *
3502365 TCTAAGCAGAGGCTCAACAACTTTAAAATTCGTCTTGAAAAAGCTCA
1 TCTAAGCAGAGGCTCAACAACTTTAAAATTCAT-TTGAAAAAGCTCC
* * * *
3502412 TTTAAGCAGAGACTCAACAACTTTAAGAA---ATTT-AAAAAGGTTCA
1 TCTAAGCAGAGGCTCAACAACTTTAA-AATTCATTTGAAAAA-GCTCC
* * * * *
3502456 TCCAAGCAAAGGCTCAATAACTTTAAAA--AATTT-AAAAAGGTTCC
1 TCTAAGCAGAGGCTCAACAACTTTAAAATTCATTTGAAAAA-GCTCC
* * *
3502500 TATAAGCAGAAGCTCAACAACTTTAAAATTCATCATCCT-AGAAAAGCTCT
1 TCTAAGCAGAGGCTCAACAACTTTAAAATTCAT--T--TGA-AAAAGCTCC
* * **
3502550 TCTAAGCAGAGGCTCCACAACTTTAAAAATTTCATCTGAAAAAGCTTT
1 TCTAAGCAGAGGCTCAACAACTTT-AAAA-TTCATTTGAAAAAGCTCC
* * *
3502598 TTTAAGTAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCT
1 TCTAAGCAGAGGCTCAACAACTTT-AAAATTCAT-TTGAAAAAGCTCC
* * *
3502646 TATAAGTAAAGGCTCAACAACTTTAAAA
1 TCTAAGCAGAGGCTCAACAACTTTAAAA
3502674 GTCTCATATG
Statistics
Matches: 558, Mismatches: 86, Indels: 83
0.77 0.12 0.11
Matches are distributed among these distances:
42 34 0.06
43 12 0.02
44 128 0.23
45 9 0.02
46 4 0.01
47 75 0.13
48 98 0.18
49 64 0.11
50 97 0.17
51 30 0.05
52 7 0.01
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.28
Consensus pattern (46 bp):
TCTAAGCAGAGGCTCAACAACTTTAAAATTCATTTGAAAAAGCTCC
Found at i:3502393 original size:89 final size:89
Alignment explanation
Indices: 3502173--3502673 Score: 406
Period size: 89 Copynumber: 5.4 Consensus size: 89
3502163 TATCATCCTG
* * *
3502173 AAAAAGCTTCTCTAAGCAGAGGCTCAACAATTTTAAAAATCTTAT-TTGGAAAAAGCTCCTCTAA
1 AAAAAGCTTTTCTAAGCAGAGGCTCAACAACTTT-AAAAT-TCATCTT-GAAAAAGCTCCTCTAA
*
3502237 GCAGAGGCTCAACAACTTTAAAAAATTTA
63 GCAGAGACTCAACAACTTT-AAAAA-TTA
* * *
3502266 AAAATGCTCCTT-TAAGCAGAGGCTCTACAACTTTAAAATTCATCTTGAAAAAGCTCCTCTAAGC
1 AAAAAGCT-TTTCTAAGCAGAGGCTCAACAACTTTAAAATTCATCTTGAAAAAGCTCCTCTAAGC
* * *
3502330 AGAGATTCGATAACTTTAAAAATTA
65 AGAGACTCAACAACTTTAAAAATTA
* * *
3502355 AAAAAGCTTTTCTAAGCAGAGGCTCAACAACTTTAAAATTCGTCTTGAAAAAGCTCATTTAAGCA
1 AAAAAGCTTTTCTAAGCAGAGGCTCAACAACTTTAAAATTCATCTTGAAAAAGCTCCTCTAAGCA
*
3502420 GAGACTCAACAACTTTAAGAAATTT
66 GAGACTCAACAACTTTAA-AAATTA
* * * * * * * *
3502445 AAAAAGGTTCATCCAAGCAAAGGCTCAATAACTTTAAAA--AAT-TT-AAAAAGGTTCCTATAAG
1 AAAAAGCTT-TTCTAAGCAGAGGCTCAACAACTTTAAAATTCATCTTGAAAAA-GCTCCTCTAAG
3502506 CAGA-AGCTCAACAACTTTAAAATTCATCATCCTA
64 CAGAGA-CTCAACAACTTT-AAA---A--AT--TA
* * * ** *
3502540 GAAAAGCTCTTCTAAGCAGAGGCTCCACAACTTTAAAAATTTCATC-TGAAAAAGCTTTTTTAAG
1 AAAAAGCTTTTCTAAGCAGAGGCTCAACAACTTT-AAAA-TTCATCTTGAAAAAGCTCCTCTAAG
* *
3502604 TAGAGGCTCAACAACTTTAAAAATTCA
64 CAGAGACTCAACAACTTTAAAAATT-A
* * * *
3502631 TCTTGAAAAAGCTCTTATAAGTAAAGGCTCAACAACTTTAAAA
1 -----AAAAAGCTTTTCTAAGCAGAGGCTCAACAACTTTAAAA
3502674 GTCTCATATG
Statistics
Matches: 329, Mismatches: 51, Indels: 54
0.76 0.12 0.12
Matches are distributed among these distances:
87 6 0.02
88 29 0.09
89 77 0.23
90 19 0.06
91 61 0.19
92 9 0.03
93 29 0.09
94 22 0.07
95 15 0.05
96 29 0.09
97 3 0.01
98 25 0.08
99 5 0.02
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.28
Consensus pattern (89 bp):
AAAAAGCTTTTCTAAGCAGAGGCTCAACAACTTTAAAATTCATCTTGAAAAAGCTCCTCTAAGCA
GAGACTCAACAACTTTAAAAATTA
Done.