Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 151 of 318
Found at i:47159611 original size:43 final size:43
Alignment explanation
Indices: 47159481--47159615 Score: 166
Period size: 43 Copynumber: 3.1 Consensus size: 43
47159471 CATACATGTT
* * *
47159481 ATCAC-ATATCGATGCCACTGTCCTAGACAGGGTCTTACACGAA
1 ATCACAATA-CGATGCCAATGTCCTAGACATGGTCTTACACGTA
*
47159524 ATCA-AATAACGATGCCAATGTCCCAGACATGGTCTTACACGTA
1 ATCACAAT-ACGATGCCAATGTCCTAGACATGGTCTTACACGTA
* * * *
47159567 ATCACAATACAATGCCAATGTCCTATACATGCTCTTACATGTA
1 ATCACAATACGATGCCAATGTCCTAGACATGGTCTTACACGTA
47159610 ATCACA
1 ATCACA
47159616 TCTCAATAAC
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
43 76 0.95
44 4 0.05
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (43 bp):
ATCACAATACGATGCCAATGTCCTAGACATGGTCTTACACGTA
Found at i:47165588 original size:13 final size:13
Alignment explanation
Indices: 47165570--47165594 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47165560 GGGCGTGTGG
47165570 GTCCACATGGGTA
1 GTCCACATGGGTA
47165583 GTCCACATGGGT
1 GTCCACATGGGT
47165595 GTGTGGGGTT
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:0.20, C:0.24, G:0.32, T:0.24
Consensus pattern (13 bp):
GTCCACATGGGTA
Found at i:47167298 original size:9 final size:9
Alignment explanation
Indices: 47167284--47167309 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
47167274 TTAAAACCAT
47167284 CTAAAATCC
1 CTAAAATCC
47167293 CTAAAATCC
1 CTAAAATCC
47167302 CTAAAATC
1 CTAAAATC
47167310 TGGAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (9 bp):
CTAAAATCC
Found at i:47168152 original size:8 final size:8
Alignment explanation
Indices: 47168141--47168189 Score: 53
Period size: 8 Copynumber: 6.1 Consensus size: 8
47168131 AATTAATAAT
47168141 ATAATATA
1 ATAATATA
*
47168149 ATAATTTA
1 ATAATATA
*
47168157 ATAATTTA
1 ATAATATA
*
47168165 ATAATTTA
1 ATAATATA
*
47168173 ATAAAATA
1 ATAATATA
*
47168181 ATAAAATA
1 ATAATATA
47168189 A
1 A
47168190 ATAAAATAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 38 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
ATAATATA
Found at i:47168152 original size:13 final size:13
Alignment explanation
Indices: 47168129--47168206 Score: 56
Period size: 13 Copynumber: 6.1 Consensus size: 13
47168119 TTTATACTTA
47168129 ATAAT-TAATAAT
1 ATAATATAATAAT
47168141 ATAATATAATAATTT
1 ATAATATAATAA--T
*
47168156 AATAATTTAATAAT
1 -ATAATATAATAAT
* *
47168170 TTAATAAAATAAT
1 ATAATATAATAAT
* *
47168183 AAAATA-AATAAA
1 ATAATATAATAAT
47168195 ATAA-ATAA-AAT
1 ATAATATAATAAT
47168206 A
1 A
47168207 AAGAAACAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 11
0.72 0.12 0.15
Matches are distributed among these distances:
11 4 0.08
12 15 0.29
13 20 0.38
14 1 0.02
15 1 0.02
16 11 0.21
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
ATAATATAATAAT
Found at i:47168160 original size:16 final size:16
Alignment explanation
Indices: 47168126--47168184 Score: 72
Period size: 16 Copynumber: 3.9 Consensus size: 16
47168116 ATATTTATAC
47168126 TTAATAAT-TAATAA-
1 TTAATAATATAATAAT
47168140 -T-ATAATATAATAAT
1 TTAATAATATAATAAT
*
47168154 TTAATAATTTAATAAT
1 TTAATAATATAATAAT
*
47168170 TTAATAAAATAATAA
1 TTAATAATATAATAA
47168185 AATAAATAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
12 5 0.13
13 7 0.18
15 1 0.03
16 25 0.66
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TTAATAATATAATAAT
Found at i:47168194 original size:9 final size:9
Alignment explanation
Indices: 47168172--47168208 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
47168162 TTAATAATTT
47168172 AATAAAAT-
1 AATAAAATA
47168180 AATAAAATA
1 AATAAAATA
47168189 AATAAAATA
1 AATAAAATA
47168198 AATAAAATA
1 AATAAAATA
47168207 AA
1 AA
47168209 GAAACAATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 8 0.29
9 20 0.71
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (9 bp):
AATAAAATA
Found at i:47175410 original size:47 final size:46
Alignment explanation
Indices: 47175298--47175412 Score: 144
Period size: 48 Copynumber: 2.5 Consensus size: 46
47175288 TCATTTGTGT
* *
47175298 GAGCTAGTGTAAGACATGTTTGGGACATGCATCGGCTGCATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTGCATGATGA
*
47175344 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTG-A-GATGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC--TGCATGATGA
*
47175392 GTGCTAGTGTAAGACATGTCT
1 GAGCTAGTGTAAGACATGTCT
47175413 AGTGTCACGG
Statistics
Matches: 60, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
46 13 0.22
47 20 0.33
48 24 0.40
49 1 0.02
50 2 0.03
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTGCATGATGA
Found at i:47184009 original size:8 final size:8
Alignment explanation
Indices: 47183996--47184037 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
47183986 ATTAAGCATG
47183996 TAATATAA
1 TAATATAA
*
47184004 TAATATAT
1 TAATATAA
47184012 TAATATAA
1 TAATATAA
*
47184020 TAATTTAA
1 TAATATAA
*
47184028 TAATAGAA
1 TAATATAA
47184036 TA
1 TA
47184038 GAAGAAATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (8 bp):
TAATATAA
Found at i:47184074 original size:22 final size:23
Alignment explanation
Indices: 47184029--47184075 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
47184019 ATAATTTAAT
* *
47184029 AATAGAATAGAAGAAATAAAAGA
1 AATAAAATAGAAGAAACAAAAGA
*
47184052 AATAAAATA-AAGAAACAATAGA
1 AATAAAATAGAAGAAACAAAAGA
47184074 AA
1 AA
47184076 AAGAGAACAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.72, C:0.02, G:0.13, T:0.13
Consensus pattern (23 bp):
AATAAAATAGAAGAAACAAAAGA
Found at i:47201483 original size:41 final size:43
Alignment explanation
Indices: 47201383--47201487 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 43
47201373 TGTGTTCTTG
* * * * *
47201383 TGTAAGACCATATCTAGGACGTTGGCATCGATATGTGATTACG
1 TGTAAGACCATATCTGGGACATCGACATCGATATGTGATTACA
* *
47201426 TGTAAGACCATGTCTGGGACATCGACATCG-TATTTGATT-CA
1 TGTAAGACCATATCTGGGACATCGACATCGATATGTGATTACA
*
47201467 TGTAAGACCCTATCTGGGACA
1 TGTAAGACCATATCTGGGACA
47201488 GTGGCATCGA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 20 0.38
42 8 0.15
43 25 0.47
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.30
Consensus pattern (43 bp):
TGTAAGACCATATCTGGGACATCGACATCGATATGTGATTACA
Found at i:47201496 original size:41 final size:42
Alignment explanation
Indices: 47201383--47201500 Score: 127
Period size: 41 Copynumber: 2.8 Consensus size: 42
47201373 TGTGTTCTTG
* * *
47201383 TGTAAGACCATATCTAGGAC-GTTGGCATCGATATGTGATTACG
1 TGTAAGACCATATCTGGGACAG-TGGCATCG-TATTTGATTACA
* *
47201426 TGTAAGACCATGTCTGGGACA-TCGACATCGTATTTGATT-CA
1 TGTAAGACCATATCTGGGACAGT-GGCATCGTATTTGATTACA
*
47201467 TGTAAGACCCTATCTGGGACAGTGGCATCG-ATTT
1 TGTAAGACCATATCTGGGACAGTGGCATCGTATTT
47201501 ATTGATATGT
Statistics
Matches: 64, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
40 4 0.06
41 26 0.41
42 10 0.16
43 24 0.38
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGACAGTGGCATCGTATTTGATTACA
Found at i:47212943 original size:21 final size:20
Alignment explanation
Indices: 47212914--47212952 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
47212904 CAAAACTTGT
47212914 ATAATTATCATCAAACATTC
1 ATAATTATCATCAAACATTC
*
47212934 ATAATCTATCATTAAACAT
1 ATAAT-TATCATCAAACAT
47212953 CAAAATACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (20 bp):
ATAATTATCATCAAACATTC
Found at i:47213974 original size:68 final size:68
Alignment explanation
Indices: 47213861--47214061 Score: 276
Period size: 68 Copynumber: 3.0 Consensus size: 68
47213851 CGACTTAATT
** * *
47213861 TGTTGCCATAATCGAGCTATGGTTTTACATAATGTAACCCAATGTTTATTGTCCTAGCGGACTCC
1 TGTTGCCATAGCCGAGCTATGGTTTTACACAATGTAACCCCATGTTTATTGTCCTAGCGGACTCC
47213926 ATA
66 ATA
* * * * * *
47213929 TGTTGCCATAGCCGACCTATGGTCTTATACAATGTAACCCCATGTTTATTGTCTTGGCAGACTCC
1 TGTTGCCATAGCCGAGCTATGGTTTTACACAATGTAACCCCATGTTTATTGTCCTAGCGGACTCC
47213994 ATA
66 ATA
* * * *
47213997 TGTTACCATAGCAGAGCTATGGTTTTACACAATGTAACCCCATGTTTATTTTCCTAGCGAACTCC
1 TGTTGCCATAGCCGAGCTATGGTTTTACACAATGTAACCCCATGTTTATTGTCCTAGCGGACTCC
47214062 CGATTCAGAA
Statistics
Matches: 113, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
68 113 1.00
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.34
Consensus pattern (68 bp):
TGTTGCCATAGCCGAGCTATGGTTTTACACAATGTAACCCCATGTTTATTGTCCTAGCGGACTCC
ATA
Found at i:47218605 original size:19 final size:19
Alignment explanation
Indices: 47218583--47218670 Score: 60
Period size: 19 Copynumber: 4.8 Consensus size: 19
47218573 TATTTTAGAT
47218583 TTTTTTGAAATTTTTATAA
1 TTTTTTGAAATTTTTATAA
***
47218602 TTTTTT-AAA-AAATATAA
1 TTTTTTGAAATTTTTATAA
*
47218619 -ATTTTGAAATTTTTATAAA
1 TTTTTTGAAATTTTTAT-AA
* * *
47218638 TATTTT-AAATTTTAAAAA
1 TTTTTTGAAATTTTTATAA
47218656 TTATTTTG-AATTTTT
1 TT-TTTTGAAATTTTT
47218671 GTTCAGAGAA
Statistics
Matches: 52, Mismatches: 11, Indels: 12
0.69 0.15 0.16
Matches are distributed among these distances:
16 4 0.08
17 8 0.15
18 9 0.17
19 26 0.50
20 5 0.10
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (19 bp):
TTTTTTGAAATTTTTATAA
Found at i:47222415 original size:351 final size:351
Alignment explanation
Indices: 47221762--47222477 Score: 1180
Period size: 351 Copynumber: 2.0 Consensus size: 351
47221752 CGCGGACAGA
* * ** *
47221762 CACACGAGCGTGTGTCTAGACCGTGTGTGACACACAGCCAAGTACATAGGCGTGTAGTTAGGCTG
1 CACACGGGCATGTGTCTAGACCGTGTGTGACACACAGCCAAGTACATAGAAGTGTAGTTAGGCCG
*
47221827 TGTGTCCCCTGCACCCTAAATTTTGAGAAACAGAATGCTCAGAATTGAGCATACGGGCAGAGACA
66 TGTGTCCCCTACACCCTAAATTTTGAGAAACAGAATGCTCAGAATTGAGCATACGGGCAGAGACA
*
47221892 CAAGCGTGTGTCTCAGCCATATGTCCTACACGGCCTAGAACAAAGGCGTGTGTCTTAGCCGTGTG
131 CAAGCGTGTGTCTCAGCCATATATCCTACACGGCCTAGAACAAAGGCGTGTGTCTTAGCCGTGTG
* * * *
47221957 AAACCTGCACCTAATTTCGAATTGAATTGATTAACCACATGGCCTAGCACACGGTCGTGTGGCAT
196 AAACCTACACCTAATTTCGAATTGAATTGATTAACCACACGGCCTAACACACGGGCGTGTGGCAT
** * *
47222022 GGTTGTGTGCACAAGTCAGAGAGTTACATGGGGTCGAACACGGCCTCTAACACGGGCTTGTCCCA
261 GGCCGTGTGCACAAGTCAGAGAGTTACACGGGGTCGAACACGGCCTCTAACACGGGCTTCTCCCA
*
47222087 AGGTCACATGAGCGTGTCCCTTGGAC
326 AGGTCACACGAGCGTGTCCCTTGGAC
* *
47222113 CACACGGGCATGTGTCTAGATCGTGTGTGACACACTGCCAAGTACATAGAAGTGTAGTTAGGCCG
1 CACACGGGCATGTGTCTAGACCGTGTGTGACACACAGCCAAGTACATAGAAGTGTAGTTAGGCCG
*
47222178 TGTGTCCCCTACACCCTAAATTTTGAGAAACAGAATGCTCAGAATTGAGCATACGTGCAGAGACA
66 TGTGTCCCCTACACCCTAAATTTTGAGAAACAGAATGCTCAGAATTGAGCATACGGGCAGAGACA
* * * **
47222243 CAAGTGTGTGTCTCAGCCATGTATGCTACACGGCCTAGAACACGGGCGTGTGTCTTAGCCGTGTG
131 CAAGCGTGTGTCTCAGCCATATATCCTACACGGCCTAGAACAAAGGCGTGTGTCTTAGCCGTGTG
*
47222308 AAACCTATACCTAATTTCGAATTGAATTGATTAACCACACGGCCTAACACACGGGCGTGTGGCAT
196 AAACCTACACCTAATTTCGAATTGAATTGATTAACCACACGGCCTAACACACGGGCGTGTGGCAT
*
47222373 GGCCGTGTGCACAAGTCAGAGAGTTACACGGGGTCGAACACGGCCTCTAACACGGGCTTCTCCTA
261 GGCCGTGTGCACAAGTCAGAGAGTTACACGGGGTCGAACACGGCCTCTAACACGGGCTTCTCCCA
*
47222438 GGGTCACACGAGCGTGTCCCTTGGAC
326 AGGTCACACGAGCGTGTCCCTTGGAC
*
47222464 CACATGGGCATGTG
1 CACACGGGCATGTG
47222478 AGCCCTGCAC
Statistics
Matches: 337, Mismatches: 28, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
351 337 1.00
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (351 bp):
CACACGGGCATGTGTCTAGACCGTGTGTGACACACAGCCAAGTACATAGAAGTGTAGTTAGGCCG
TGTGTCCCCTACACCCTAAATTTTGAGAAACAGAATGCTCAGAATTGAGCATACGGGCAGAGACA
CAAGCGTGTGTCTCAGCCATATATCCTACACGGCCTAGAACAAAGGCGTGTGTCTTAGCCGTGTG
AAACCTACACCTAATTTCGAATTGAATTGATTAACCACACGGCCTAACACACGGGCGTGTGGCAT
GGCCGTGTGCACAAGTCAGAGAGTTACACGGGGTCGAACACGGCCTCTAACACGGGCTTCTCCCA
AGGTCACACGAGCGTGTCCCTTGGAC
Found at i:47226675 original size:11 final size:11
Alignment explanation
Indices: 47226659--47226695 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
47226649 TTTCTCAGTG
47226659 AAAAAATTATA
1 AAAAAATTATA
47226670 AAAAAATTATA
1 AAAAAATTATA
* *
47226681 TAAAAATTTTA
1 AAAAAATTATA
47226692 AAAA
1 AAAA
47226696 CTCAAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
AAAAAATTATA
Found at i:47227844 original size:29 final size:29
Alignment explanation
Indices: 47227776--47227868 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 29
47227766 GGCCAATTGA
47227776 TTTTTTTTTTATCAGTGAA-AGCTTAATTGGG
1 TTTTTTTTTT-TCA-T-AAGAGCTTAATTGGG
****
47227807 TGCGCTTTTTTCATAAGAGCTTAATTGGG
1 TTTTTTTTTTTCATAAGAGCTTAATTGGG
*
47227836 --TTTTTTTTTCATAATG-GCTCAATT-GG
1 TTTTTTTTTTTCATAA-GAGCTTAATTGGG
47227862 TTTTTTT
1 TTTTTTT
47227869 AATTAAGGGT
Statistics
Matches: 50, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
26 2 0.04
27 18 0.36
28 8 0.16
29 13 0.26
30 3 0.06
31 6 0.12
ACGTcount: A:0.19, C:0.10, G:0.18, T:0.53
Consensus pattern (29 bp):
TTTTTTTTTTTCATAAGAGCTTAATTGGG
Found at i:47227863 original size:26 final size:27
Alignment explanation
Indices: 47227812--47227868 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
47227802 TTGGGTGCGC
*
47227812 TTTTTTCATAAGAGCTTAATTGGGTTT
1 TTTTTTCATAAGAGCTCAATTGGGTTT
47227839 TTTTTTCATAATG-GCTCAATT-GGTTT
1 TTTTTTCATAA-GAGCTCAATTGGGTTT
47227865 TTTT
1 TTTT
47227869 AATTAAGGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 9 0.32
27 18 0.64
28 1 0.04
ACGTcount: A:0.19, C:0.09, G:0.16, T:0.56
Consensus pattern (27 bp):
TTTTTTCATAAGAGCTCAATTGGGTTT
Found at i:47230377 original size:20 final size:21
Alignment explanation
Indices: 47230343--47230396 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
47230333 TGATGATATT
*
47230343 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATGAGATA
47230364 -TATATTATTTTAATGAGATA
1 TTATATTATTTTAATGAGATA
*
47230384 TTTTATTATTTTA
1 TTATATTATTTTA
47230397 TTATTATTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATGAGATA
Found at i:47230400 original size:3 final size:3
Alignment explanation
Indices: 47230382--47230430 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
47230372 TTTAATGAGA
*
47230382 TAT T-T TAT TAT T-T TAT TAT TAT T-T CAT TAT TAT T-T TAT TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
47230427 TAT T
1 TAT T
47230431 TAGTATAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 7 0.18
3 29 0.74
4 3 0.08
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:47230402 original size:11 final size:11
Alignment explanation
Indices: 47230386--47230424 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
47230376 ATGAGATATT
47230386 TTATTATTTTA
1 TTATTATTTTA
*
47230397 TTATTATTTCA
1 TTATTATTTTA
47230408 TTATTATTTTA
1 TTATTATTTTA
47230419 TTATTA
1 TTATTA
47230425 ATTATTTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:47230410 original size:19 final size:19
Alignment explanation
Indices: 47230382--47230423 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
47230372 TTTAATGAGA
*
47230382 TATTTTATTATT-TTATTAT
1 TATTTCATTATTATT-TTAT
47230401 TATTTCATTATTATTTTAT
1 TATTTCATTATTATTTTAT
47230420 TATT
1 TATT
47230424 AATTATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
TATTTCATTATTATTTTAT
Found at i:47232671 original size:23 final size:23
Alignment explanation
Indices: 47232562--47232678 Score: 103
Period size: 23 Copynumber: 5.0 Consensus size: 23
47232552 CCCGATATAT
47232562 GGCTCTTCGTGAGCTTCCCGATA
1 GGCTCTTCGTGAGCTTCCCGATA
* *
47232585 GGCTTTTTGTGAGCTTCCCGATA
1 GGCTCTTCGTGAGCTTCCCGATA
* * *
47232608 GTGCTC-GCTTGAACTTCCCGATATA
1 G-GCTCTTCGTGAGCTTCCCG--ATA
* * *
47232633 TGGCTATCCG-GAGCTTTCCGATA
1 -GGCTCTTCGTGAGCTTCCCGATA
*
47232656 GGCTCTTCGTGAGCTTTCCGATA
1 GGCTCTTCGTGAGCTTCCCGATA
47232679 TGGTTCTTTG
Statistics
Matches: 74, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
22 7 0.09
23 48 0.65
24 3 0.04
25 14 0.19
26 2 0.03
ACGTcount: A:0.15, C:0.26, G:0.25, T:0.33
Consensus pattern (23 bp):
GGCTCTTCGTGAGCTTCCCGATA
Found at i:47235329 original size:50 final size:53
Alignment explanation
Indices: 47235237--47235352 Score: 166
Period size: 50 Copynumber: 2.2 Consensus size: 53
47235227 CACTTACATG
* * *
47235237 ATATGGTCTTCTTCCCATATGATTCCATAACCCACTAGTTATGGTCTTACACA
1 ATATGGTCTTCTTCCCATATGATGCCATAACCCACCAATTATGGTCTTACACA
* *
47235290 ATATGGTCTTCTT-CC-TAT-ATGCTATAACCCACCAATTATGGTCTTACACG
1 ATATGGTCTTCTTCCCATATGATGCCATAACCCACCAATTATGGTCTTACACA
47235340 ATATGGTCTTCTT
1 ATATGGTCTTCTT
47235353 TCAGTGCCAT
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
50 40 0.69
51 3 0.05
52 2 0.03
53 13 0.22
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (53 bp):
ATATGGTCTTCTTCCCATATGATGCCATAACCCACCAATTATGGTCTTACACA
Found at i:47246089 original size:26 final size:26
Alignment explanation
Indices: 47246053--47246108 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
47246043 TGAAATTCCA
47246053 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
47246079 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
47246105 ATCA
1 ATCA
47246109 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:47255981 original size:3 final size:3
Alignment explanation
Indices: 47255973--47256033 Score: 113
Period size: 3 Copynumber: 20.3 Consensus size: 3
47255963 TTCGATCTTA
*
47255973 ATG ATG ATG ATG ATG ATG ATG ATG ATT ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
47256021 ATG ATG ATG ATG A
1 ATG ATG ATG ATG A
47256034 GAATGTTGAG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:47256607 original size:14 final size:14
Alignment explanation
Indices: 47256588--47256617 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
47256578 TATTTTCAAG
47256588 ATAGATTAACGCAT
1 ATAGATTAACGCAT
*
47256602 ATAGATTCACGCAT
1 ATAGATTAACGCAT
47256616 AT
1 AT
47256618 TTATAAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (14 bp):
ATAGATTAACGCAT
Found at i:47260376 original size:33 final size:33
Alignment explanation
Indices: 47260334--47260401 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
47260324 CGAGTCACAC
47260334 ATACATAGTTTATCATCCACTCAAGATTAAGGT
1 ATACATAGTTTATCATCCACTCAAGATTAAGGT
** *
47260367 ATACATAGTTTATCATCCACTTGAGATTAATGT
1 ATACATAGTTTATCATCCACTCAAGATTAAGGT
47260400 AT
1 AT
47260402 GTCCCACTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (33 bp):
ATACATAGTTTATCATCCACTCAAGATTAAGGT
Found at i:47262568 original size:19 final size:20
Alignment explanation
Indices: 47262538--47262583 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
47262528 CGGAAAATGA
47262538 TTTCTAGAAAATGATTTACT
1 TTTCTAGAAAATGATTTACT
47262558 TTTCT-GAAAATGATTTACT
1 TTTCTAGAAAATGATTTACT
47262577 TTTCTAG
1 TTTCTAG
47262584 TGTTTGGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (20 bp):
TTTCTAGAAAATGATTTACT
Found at i:47263424 original size:15 final size:15
Alignment explanation
Indices: 47263404--47263436 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
47263394 TTCCATCAGT
47263404 AAGTTGCCAAGCATA
1 AAGTTGCCAAGCATA
*
47263419 AAGTTGCCAGGCATA
1 AAGTTGCCAAGCATA
47263434 AAG
1 AAG
47263437 ATACAAGGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.18
Consensus pattern (15 bp):
AAGTTGCCAAGCATA
Found at i:47264481 original size:22 final size:23
Alignment explanation
Indices: 47264455--47264500 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
47264445 CAACCAAACC
47264455 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
47264477 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
47264500 A
1 A
47264501 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:47264506 original size:23 final size:23
Alignment explanation
Indices: 47264462--47264506 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
47264452 ACCAATTCAA
*
47264462 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
47264485 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
47264507 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:47269509 original size:25 final size:25
Alignment explanation
Indices: 47269481--47269530 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
47269471 CGAAGAGAAC
47269481 ATGAAGAAC-GAAAGAAGGAAAAGGA
1 ATGAAGAACAG-AAGAAGGAAAAGGA
*
47269506 ATGAAGAACAGAAGAAGGAGAAGGA
1 ATGAAGAACAGAAGAAGGAAAAGGA
47269531 GAATGAGCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 22 0.96
26 1 0.04
ACGTcount: A:0.58, C:0.04, G:0.34, T:0.04
Consensus pattern (25 bp):
ATGAAGAACAGAAGAAGGAAAAGGA
Found at i:47271655 original size:12 final size:12
Alignment explanation
Indices: 47271638--47271663 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
47271628 AATACTTCCC
47271638 TTCTTTTTTTTT
1 TTCTTTTTTTTT
47271650 TTCTTTTTTTTT
1 TTCTTTTTTTTT
47271662 TT
1 TT
47271664 TTGGCTCATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTCTTTTTTTTT
Found at i:47275312 original size:19 final size:19
Alignment explanation
Indices: 47275288--47275325 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
47275278 TAAAATAAAG
47275288 TCAGTCTCCATCTCAATTA
1 TCAGTCTCCATCTCAATTA
47275307 TCAGTCTCCATCTCAATTA
1 TCAGTCTCCATCTCAATTA
47275326 CAAAAGGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.32, G:0.05, T:0.37
Consensus pattern (19 bp):
TCAGTCTCCATCTCAATTA
Found at i:47279209 original size:4 final size:4
Alignment explanation
Indices: 47279200--47279224 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
47279190 CCAAAAATAA
47279200 AAAG AAAG AAAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG A
47279225 TATACTATAA
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:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:47300093 original size:13 final size:13
Alignment explanation
Indices: 47300075--47300100 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47300065 ACGGAGATTG
47300075 ACATGGCCGTGTA
1 ACATGGCCGTGTA
47300088 ACATGGCCGTGTA
1 ACATGGCCGTGTA
47300101 CACCAATGCT
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:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (13 bp):
ACATGGCCGTGTA
Found at i:47304550 original size:42 final size:43
Alignment explanation
Indices: 47304454--47304611 Score: 128
Period size: 43 Copynumber: 3.7 Consensus size: 43
47304444 AACAAGTACA
* * *
47304454 ATGCCAATGTCTCAGAC-GTGGTCTTACATGTAATTCAATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGTAAATCAATATCG
** * *
47304497 ATGCCTCTGTCCTAGATAGGGTCTTACACG-AAATCAGATAT-G
1 ATGCCAATGTCCCAGACAGGGTCTTACACGTAAATCA-ATATCG
*
47304539 ATGCCAATGTCCCAGACATGGTC-TACACGTAAATCTTAA-ATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGTAAATC--AATATCG
* ** * *
47304582 AAGCCTGTCTCCCAGACACGGTCTTACACG
1 ATGCCAATGTCCCAGACAGGGTCTTACACG
47304612 ATATTTCAGA
Statistics
Matches: 91, Mismatches: 17, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
41 6 0.07
42 31 0.34
43 46 0.51
44 8 0.09
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACGTAAATCAATATCG
Found at i:47304605 original size:85 final size:85
Alignment explanation
Indices: 47304454--47304612 Score: 196
Period size: 85 Copynumber: 1.9 Consensus size: 85
47304444 AACAAGTACA
* * * * * * * *
47304454 ATGCCAATGTCTCAGACGTGGTCTTACATGTAATTCAATATCGATGCCTCTGTCCTAGATAGGGT
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATTCAATATCGAAGCCTCTCTCCCAGACACGGT
47304519 CTTACACGAAATCAGATATG
66 CTTACACGAAATCAGATATG
* *
47304539 ATGCCAATGTCCCAGACATGGTC-TACACGTAAATCTTAA-ATCGAAGCCTGTCTCCCAGACACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGT-AAT-TCAATATCGAAGCCTCTCTCCCAGACACG
47304602 GTCTTACACGA
64 GTCTTACACGA
47304613 TATTTCAGAT
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
84 6 0.10
85 53 0.85
86 3 0.05
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (85 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATTCAATATCGAAGCCTCTCTCCCAGACACGGT
CTTACACGAAATCAGATATG
Found at i:47307680 original size:22 final size:21
Alignment explanation
Indices: 47307630--47307681 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
47307620 AGGGGTCAAC
* *
47307630 ACGCCCATGTAAAGGAGGTAT
1 ACGCCCGTGTAAAGGAGGCAT
47307651 ACGCCCGTGTAAAGGGAGGCAT
1 ACGCCCGTGTAAA-GGAGGCAT
* *
47307673 GCGGCCGTG
1 ACGCCCGTG
47307682 CAACCTAGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.25, C:0.23, G:0.37, T:0.15
Consensus pattern (21 bp):
ACGCCCGTGTAAAGGAGGCAT
Found at i:47313866 original size:34 final size:34
Alignment explanation
Indices: 47313823--47313891 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
47313813 TGTTGAACCC
47313823 TGCACCCATAAAGAAAATACTTTAAAGCACAAAT
1 TGCACCCATAAAGAAAATACTTTAAAGCACAAAT
*
47313857 TGCACCCATAAGGAAAATACTTTAAAGCACAAAT
1 TGCACCCATAAAGAAAATACTTTAAAGCACAAAT
47313891 T
1 T
47313892 AAGTAAGCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.48, C:0.20, G:0.10, T:0.22
Consensus pattern (34 bp):
TGCACCCATAAAGAAAATACTTTAAAGCACAAAT
Found at i:47326779 original size:18 final size:18
Alignment explanation
Indices: 47326752--47326800 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
47326742 ATTGCTTTTC
47326752 AGAAGCACTTTTGGGACA
1 AGAAGCACTTTTGGGACA
*
47326770 AGAAGTACTTTTGGGACA
1 AGAAGCACTTTTGGGACA
*
47326788 AAAAGCACTTTTG
1 AGAAGCACTTTTG
47326801 AGATAAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (18 bp):
AGAAGCACTTTTGGGACA
Found at i:47329027 original size:23 final size:23
Alignment explanation
Indices: 47328985--47329029 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
47328975 TCATGACTTA
*
47328985 TAAAATTTATGATTTGAAATTTT
1 TAAAATTTATGATTTAAAATTTT
47329008 TAAAATTT-TGATTTTAAAATTT
1 TAAAATTTATGA-TTTAAAATTT
47329030 AGGATTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (23 bp):
TAAAATTTATGATTTAAAATTTT
Found at i:47339118 original size:55 final size:55
Alignment explanation
Indices: 47339045--47339195 Score: 189
Period size: 55 Copynumber: 2.7 Consensus size: 55
47339035 AATCGATTAG
* * *
47339045 ACATATAAACAATCGATTCAAAATAAGCAATATTCCAACATA-A-AACTTTATTTGA
1 ACATATAAACAATCGATTCAAAAGAAGCAATATTCCAACA-AGACAA-TCTATTTAA
* * * *
47339100 ACATAAAAAAAATTGATTCAAAAGAAGCAGTATTCCAACAAGACAATCTATTTAA
1 ACATATAAACAATCGATTCAAAAGAAGCAATATTCCAACAAGACAATCTATTTAA
* *
47339155 ACATATAAACAATCGATTCAATAGAAGCAATATCCCAACAA
1 ACATATAAACAATCGATTCAAAAGAAGCAATATTCCAACAA
47339196 TTAAGAAGAA
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
54 1 0.01
55 78 0.96
56 2 0.02
ACGTcount: A:0.51, C:0.17, G:0.07, T:0.25
Consensus pattern (55 bp):
ACATATAAACAATCGATTCAAAAGAAGCAATATTCCAACAAGACAATCTATTTAA
Found at i:47348396 original size:413 final size:414
Alignment explanation
Indices: 47347241--47348909 Score: 3295
Period size: 414 Copynumber: 4.0 Consensus size: 414
47347231 CCAATGACTC
* *
47347241 CATCTCTAGTTCTTTCAAACTGTAAGCAAACATTAGTAGTACCTCGTAAGTATCTTAAAATCAAC
1 CATCTCAAATTCTTTCAAACTGTAAGCAAACATTAGTAGTACCTCGTAAGTATCTTAAAATCAAC
47347306 TAAACTACTTTCTAATATTCTTTATCGGGATTCGCCATGTATCTGCTAACTGCACTGACTGCATA
66 TAAACTACTTTCTAATATTCTTTATCGGGATTCGCCATGTATCTGCTAACTGCACTGACTGCATA
47347371 TTATATATCTGGACATAAACAAACCATAGCATACATGAAAGATCCCATTGCACTAGAATATGGAA
131 TTATATATCTGGACATAAACAAACCATAGCATACATGAAAGATCCCATTGCACTAGAATATGGAA
47347436 CATGTGACATGTAATCAATCTCATCATCTGATTGTGGAGACAAAGCCGATGAAAGTCTGAAATAG
196 CATGTGACATGTAATCAATCTCATCATCTGATTGTGGAGACAAAGCCGATGAAAGTCTGAAATAG
47347501 ACTACTAAAGGAGTACTAACAGGCTTAGCACTTTGCATTTTGAACCTGCAAAGAACTTTCTCAAT
261 ACTACTAAAGGAGTACTAACAGGCTTAGCACTTTGCATTTTGAACCTGCAAAGAACTTTCTCAAT
47347566 GTACCCTTTTGAATTAGGTACAATTTACTTGTTTTTCTATTTCTGAGAATCTCCATACCAAGTAT
326 GTACCCTTTTGAATTAGGTACAATTTACTTGTTTTTCTATTTCTGAGAATCTCCATACCAAGTAT
47347631 TTTCTTTGCTGGTCCCAAATCTTT
391 TTTCTTTGCTGGTCCCAAATCTTT
47347655 CATCTCAAATTCTTTCAAACTGTAAGCAAACATTAGTAGTACCTCGTAAGTATCTTAAAATCAAC
1 CATCTCAAATTCTTTCAAACTGTAAGCAAACATTAGTAGTACCTCGTAAGTATCTTAAAATCAAC
47347720 TAAACTACTTTCTAATATTCTTTATCGGGATTCGCCATGTATCTGCTAACTGCACTGACTGCATA
66 TAAACTACTTTCTAATATTCTTTATCGGGATTCGCCATGTATCTGCTAACTGCACTGACTGCATA
47347785 TTATATATCTGGACATAAACAAACCATAGCATACATGAAAGATCCCATTGCACTAGAATATGGAA
131 TTATATATCTGGACATAAACAAACCATAGCATACATGAAAGATCCCATTGCACTAGAATATGGAA
47347850 CATGTGACATGTAATCAATCTCATCATCTGATTGTGGAGACAAAGCCGATGAAAGTCTGAAATAG
196 CATGTGACATGTAATCAATCTCATCATCTGATTGTGGAGACAAAGCCGATGAAAGTCTGAAATAG
47347915 ACTACTAAAGGAGTACTAACAGGCTTAGCACTTTGCATTTTGAACCTGCAAAGAACTTTCTCAAT
261 ACTACTAAAGGAGTACTAACAGGCTTAGCACTTTGCATTTTGAACCTGCAAAGAACTTTCTCAAT
47347980 GTACCCTTTTGAATTAGGTACAATTTACTTGTTTTTCTATTTCTGAGAATCTCCATACCAAG-AT
326 GTACCCTTTTGAATTAGGTACAATTTACTTGTTTTTCTATTTCTGAGAATCTCCATACCAAGTAT
47348044 TTTCTTTGCTGGTCCCAAATCTTT
391 TTTCTTTGCTGGTCCCAAATCTTT
47348068 CATCTCAAATTCTTTCAAACTGTAAGCAAACATTAGTAGTACCTCGTAAGTATCTTAAAATCAAC
1 CATCTCAAATTCTTTCAAACTGTAAGCAAACATTAGTAGTACCTCGTAAGTATCTTAAAATCAAC
47348133 TAAACTACTTTCTAATATTCTTTATCGGGATTCGCCATGTATCTGCTAACTGCACTGACTGCATA
66 TAAACTACTTTCTAATATTCTTTATCGGGATTCGCCATGTATCTGCTAACTGCACTGACTGCATA
47348198 TTATATATCTGGACATAAACAAACCATAGCATACATGAAAGATCCCATTGCACTAGAATATGGAA
131 TTATATATCTGGACATAAACAAACCATAGCATACATGAAAGATCCCATTGCACTAGAATATGGAA
*
47348263 CATGTGACATGTAATCAATCTCATCATCTGATTGTGGAGACAAAGCCGATGAAAGTCTTAAATAG
196 CATGTGACATGTAATCAATCTCATCATCTGATTGTGGAGACAAAGCCGATGAAAGTCTGAAATAG
47348328 ACTACTAAAGGAGTACTAACAGGCTTAGCACTTTGCATTTTGAACCTGCAAAGAACTTTCTCAAT
261 ACTACTAAAGGAGTACTAACAGGCTTAGCACTTTGCATTTTGAACCTGCAAAGAACTTTCTCAAT
47348393 GTACCCTTTTGAATTAGGTACAATTTACTTGTTTTTCTATTTCTGAGAATCTCCATACCAAGTAT
326 GTACCCTTTTGAATTAGGTACAATTTACTTGTTTTTCTATTTCTGAGAATCTCCATACCAAGTAT
47348458 TTTCTTTGCTGGTCCCAAATCTTT
391 TTTCTTTGCTGGTCCCAAATCTTT
47348482 CATCTCAAATTCTTTCAAACTGTAAGCAAACATTAGTAGTACCTCGTAAGTATCTTAAAATCAAC
1 CATCTCAAATTCTTTCAAACTGTAAGCAAACATTAGTAGTACCTCGTAAGTATCTTAAAATCAAC
47348547 TAAACTACTTTCTAATATTCTTTATCGGGATTCGCCATGTATCTGCTAACTGCACTGACTGCATA
66 TAAACTACTTTCTAATATTCTTTATCGGGATTCGCCATGTATCTGCTAACTGCACTGACTGCATA
47348612 TTATATATCTGGACATAAACAAACCATAGCATACATGAAAGATCCCATTGCACTAGAATATGGAA
131 TTATATATCTGGACATAAACAAACCATAGCATACATGAAAGATCCCATTGCACTAGAATATGGAA
47348677 CATGTGACATGTAATCAATCTCATCATCTGATTGTGGAGACAAAGCCGATGAAAGTCTGAAATAG
196 CATGTGACATGTAATCAATCTCATCATCTGATTGTGGAGACAAAGCCGATGAAAGTCTGAAATAG
47348742 ACTACTAAAGGAGTACTAACAGGCTTAGCACTTTGCATTTTGAACCTGCAAAGAACTTTCTCAAT
261 ACTACTAAAGGAGTACTAACAGGCTTAGCACTTTGCATTTTGAACCTGCAAAGAACTTTCTCAAT
47348807 GTACCCTTTTGAATTAGGTACAATTTACTTGTTTTTCTATTTCTGAGAATCTCCATACCAAGTAT
326 GTACCCTTTTGAATTAGGTACAATTTACTTGTTTTTCTATTTCTGAGAATCTCCATACCAAGTAT
*
47348872 TTTCTTTGTTGGTCCCAAATCTTT
391 TTTCTTTGCTGGTCCCAAATCTTT
47348896 CATCTCAAATTCTT
1 CATCTCAAATTCTT
47348910 CACTAAGCTG
Statistics
Matches: 1249, Mismatches: 5, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
413 412 0.33
414 837 0.67
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.33
Consensus pattern (414 bp):
CATCTCAAATTCTTTCAAACTGTAAGCAAACATTAGTAGTACCTCGTAAGTATCTTAAAATCAAC
TAAACTACTTTCTAATATTCTTTATCGGGATTCGCCATGTATCTGCTAACTGCACTGACTGCATA
TTATATATCTGGACATAAACAAACCATAGCATACATGAAAGATCCCATTGCACTAGAATATGGAA
CATGTGACATGTAATCAATCTCATCATCTGATTGTGGAGACAAAGCCGATGAAAGTCTGAAATAG
ACTACTAAAGGAGTACTAACAGGCTTAGCACTTTGCATTTTGAACCTGCAAAGAACTTTCTCAAT
GTACCCTTTTGAATTAGGTACAATTTACTTGTTTTTCTATTTCTGAGAATCTCCATACCAAGTAT
TTTCTTTGCTGGTCCCAAATCTTT
Found at i:47348845 original size:827 final size:828
Alignment explanation
Indices: 47347241--47348909 Score: 3295
Period size: 827 Copynumber: 2.0 Consensus size: 828
47347231 CCAATGACTC
* *
47347241 CATCTCTAGTTCTTTCAAACTGTAAGCAAACATTAGTAGTACCTCGTAAGTATCTTAAAATCAAC
1 CATCTCAAATTCTTTCAAACTGTAAGCAAACATTAGTAGTACCTCGTAAGTATCTTAAAATCAAC
47347306 TAAACTACTTTCTAATATTCTTTATCGGGATTCGCCATGTATCTGCTAACTGCACTGACTGCATA
66 TAAACTACTTTCTAATATTCTTTATCGGGATTCGCCATGTATCTGCTAACTGCACTGACTGCATA
47347371 TTATATATCTGGACATAAACAAACCATAGCATACATGAAAGATCCCATTGCACTAGAATATGGAA
131 TTATATATCTGGACATAAACAAACCATAGCATACATGAAAGATCCCATTGCACTAGAATATGGAA
47347436 CATGTGACATGTAATCAATCTCATCATCTGATTGTGGAGACAAAGCCGATGAAAGTCTGAAATAG
196 CATGTGACATGTAATCAATCTCATCATCTGATTGTGGAGACAAAGCCGATGAAAGTCTGAAATAG
47347501 ACTACTAAAGGAGTACTAACAGGCTTAGCACTTTGCATTTTGAACCTGCAAAGAACTTTCTCAAT
261 ACTACTAAAGGAGTACTAACAGGCTTAGCACTTTGCATTTTGAACCTGCAAAGAACTTTCTCAAT
47347566 GTACCCTTTTGAATTAGGTACAATTTACTTGTTTTTCTATTTCTGAGAATCTCCATACCAAGTAT
326 GTACCCTTTTGAATTAGGTACAATTTACTTGTTTTTCTATTTCTGAGAATCTCCATACCAAGTAT
47347631 TTTCTTTGCTGGTCCCAAATCTTTCATCTCAAATTCTTTCAAACTGTAAGCAAACATTAGTAGTA
391 TTTCTTTGCTGGTCCCAAATCTTTCATCTCAAATTCTTTCAAACTGTAAGCAAACATTAGTAGTA
47347696 CCTCGTAAGTATCTTAAAATCAACTAAACTACTTTCTAATATTCTTTATCGGGATTCGCCATGTA
456 CCTCGTAAGTATCTTAAAATCAACTAAACTACTTTCTAATATTCTTTATCGGGATTCGCCATGTA
47347761 TCTGCTAACTGCACTGACTGCATATTATATATCTGGACATAAACAAACCATAGCATACATGAAAG
521 TCTGCTAACTGCACTGACTGCATATTATATATCTGGACATAAACAAACCATAGCATACATGAAAG
47347826 ATCCCATTGCACTAGAATATGGAACATGTGACATGTAATCAATCTCATCATCTGATTGTGGAGAC
586 ATCCCATTGCACTAGAATATGGAACATGTGACATGTAATCAATCTCATCATCTGATTGTGGAGAC
47347891 AAAGCCGATGAAAGTCTGAAATAGACTACTAAAGGAGTACTAACAGGCTTAGCACTTTGCATTTT
651 AAAGCCGATGAAAGTCTGAAATAGACTACTAAAGGAGTACTAACAGGCTTAGCACTTTGCATTTT
47347956 GAACCTGCAAAGAACTTTCTCAATGTACCCTTTTGAATTAGGTACAATTTACTTGTTTTTCTATT
716 GAACCTGCAAAGAACTTTCTCAATGTACCCTTTTGAATTAGGTACAATTTACTTGTTTTTCTATT
47348021 TCTGAGAATCTCCATACCAAG-ATTTTCTTTGCTGGTCCCAAATCTTT
781 TCTGAGAATCTCCATACCAAGTATTTTCTTTGCTGGTCCCAAATCTTT
47348068 CATCTCAAATTCTTTCAAACTGTAAGCAAACATTAGTAGTACCTCGTAAGTATCTTAAAATCAAC
1 CATCTCAAATTCTTTCAAACTGTAAGCAAACATTAGTAGTACCTCGTAAGTATCTTAAAATCAAC
47348133 TAAACTACTTTCTAATATTCTTTATCGGGATTCGCCATGTATCTGCTAACTGCACTGACTGCATA
66 TAAACTACTTTCTAATATTCTTTATCGGGATTCGCCATGTATCTGCTAACTGCACTGACTGCATA
47348198 TTATATATCTGGACATAAACAAACCATAGCATACATGAAAGATCCCATTGCACTAGAATATGGAA
131 TTATATATCTGGACATAAACAAACCATAGCATACATGAAAGATCCCATTGCACTAGAATATGGAA
*
47348263 CATGTGACATGTAATCAATCTCATCATCTGATTGTGGAGACAAAGCCGATGAAAGTCTTAAATAG
196 CATGTGACATGTAATCAATCTCATCATCTGATTGTGGAGACAAAGCCGATGAAAGTCTGAAATAG
47348328 ACTACTAAAGGAGTACTAACAGGCTTAGCACTTTGCATTTTGAACCTGCAAAGAACTTTCTCAAT
261 ACTACTAAAGGAGTACTAACAGGCTTAGCACTTTGCATTTTGAACCTGCAAAGAACTTTCTCAAT
47348393 GTACCCTTTTGAATTAGGTACAATTTACTTGTTTTTCTATTTCTGAGAATCTCCATACCAAGTAT
326 GTACCCTTTTGAATTAGGTACAATTTACTTGTTTTTCTATTTCTGAGAATCTCCATACCAAGTAT
47348458 TTTCTTTGCTGGTCCCAAATCTTTCATCTCAAATTCTTTCAAACTGTAAGCAAACATTAGTAGTA
391 TTTCTTTGCTGGTCCCAAATCTTTCATCTCAAATTCTTTCAAACTGTAAGCAAACATTAGTAGTA
47348523 CCTCGTAAGTATCTTAAAATCAACTAAACTACTTTCTAATATTCTTTATCGGGATTCGCCATGTA
456 CCTCGTAAGTATCTTAAAATCAACTAAACTACTTTCTAATATTCTTTATCGGGATTCGCCATGTA
47348588 TCTGCTAACTGCACTGACTGCATATTATATATCTGGACATAAACAAACCATAGCATACATGAAAG
521 TCTGCTAACTGCACTGACTGCATATTATATATCTGGACATAAACAAACCATAGCATACATGAAAG
47348653 ATCCCATTGCACTAGAATATGGAACATGTGACATGTAATCAATCTCATCATCTGATTGTGGAGAC
586 ATCCCATTGCACTAGAATATGGAACATGTGACATGTAATCAATCTCATCATCTGATTGTGGAGAC
47348718 AAAGCCGATGAAAGTCTGAAATAGACTACTAAAGGAGTACTAACAGGCTTAGCACTTTGCATTTT
651 AAAGCCGATGAAAGTCTGAAATAGACTACTAAAGGAGTACTAACAGGCTTAGCACTTTGCATTTT
47348783 GAACCTGCAAAGAACTTTCTCAATGTACCCTTTTGAATTAGGTACAATTTACTTGTTTTTCTATT
716 GAACCTGCAAAGAACTTTCTCAATGTACCCTTTTGAATTAGGTACAATTTACTTGTTTTTCTATT
*
47348848 TCTGAGAATCTCCATACCAAGTATTTTCTTTGTTGGTCCCAAATCTTT
781 TCTGAGAATCTCCATACCAAGTATTTTCTTTGCTGGTCCCAAATCTTT
47348896 CATCTCAAATTCTT
1 CATCTCAAATTCTT
47348910 CACTAAGCTG
Statistics
Matches: 837, Mismatches: 4, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
827 798 0.95
828 39 0.05
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.33
Consensus pattern (828 bp):
CATCTCAAATTCTTTCAAACTGTAAGCAAACATTAGTAGTACCTCGTAAGTATCTTAAAATCAAC
TAAACTACTTTCTAATATTCTTTATCGGGATTCGCCATGTATCTGCTAACTGCACTGACTGCATA
TTATATATCTGGACATAAACAAACCATAGCATACATGAAAGATCCCATTGCACTAGAATATGGAA
CATGTGACATGTAATCAATCTCATCATCTGATTGTGGAGACAAAGCCGATGAAAGTCTGAAATAG
ACTACTAAAGGAGTACTAACAGGCTTAGCACTTTGCATTTTGAACCTGCAAAGAACTTTCTCAAT
GTACCCTTTTGAATTAGGTACAATTTACTTGTTTTTCTATTTCTGAGAATCTCCATACCAAGTAT
TTTCTTTGCTGGTCCCAAATCTTTCATCTCAAATTCTTTCAAACTGTAAGCAAACATTAGTAGTA
CCTCGTAAGTATCTTAAAATCAACTAAACTACTTTCTAATATTCTTTATCGGGATTCGCCATGTA
TCTGCTAACTGCACTGACTGCATATTATATATCTGGACATAAACAAACCATAGCATACATGAAAG
ATCCCATTGCACTAGAATATGGAACATGTGACATGTAATCAATCTCATCATCTGATTGTGGAGAC
AAAGCCGATGAAAGTCTGAAATAGACTACTAAAGGAGTACTAACAGGCTTAGCACTTTGCATTTT
GAACCTGCAAAGAACTTTCTCAATGTACCCTTTTGAATTAGGTACAATTTACTTGTTTTTCTATT
TCTGAGAATCTCCATACCAAGTATTTTCTTTGCTGGTCCCAAATCTTT
Found at i:47354004 original size:6 final size:6
Alignment explanation
Indices: 47353993--47354021 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
47353983 TGTTAACAAC
47353993 AAATAT AAATAT AAATAT AAATAT AAATA
1 AAATAT AAATAT AAATAT AAATAT AAATA
47354022 AATATTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAATAT
Found at i:47356540 original size:16 final size:17
Alignment explanation
Indices: 47356508--47356540 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
47356498 ATTAAATAAA
*
47356508 ATTATTTTAATTAAAAT
1 ATTATTTCAATTAAAAT
47356525 ATTATTTCAA-TAAAAT
1 ATTATTTCAATTAAAAT
47356541 TTTAAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (17 bp):
ATTATTTCAATTAAAAT
Found at i:47356764 original size:32 final size:32
Alignment explanation
Indices: 47356685--47356747 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
47356675 TCATAAACTT
* * *
47356685 ATAAATTGATTACTTAAATTTAATAACTCATG
1 ATAAATTAATTAATTTAATTTAATAACTCATG
47356717 ATAAATTAATTAATTTAATTTAATAACTCAT
1 ATAAATTAATTAATTTAATTTAATAACTCAT
47356748 ACTGATTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (32 bp):
ATAAATTAATTAATTTAATTTAATAACTCATG
Found at i:47356968 original size:24 final size:24
Alignment explanation
Indices: 47356938--47356987 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
47356928 AATTTTATGA
47356938 TAGATTTACAATAATTACCCTTTT
1 TAGATTTACAATAATTACCCTTTT
*
47356962 TAGATTTACAATAATTATCCTTTT
1 TAGATTTACAATAATTACCCTTTT
47356986 TA
1 TA
47356988 TAATAGCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.34, C:0.14, G:0.04, T:0.48
Consensus pattern (24 bp):
TAGATTTACAATAATTACCCTTTT
Found at i:47357707 original size:71 final size:71
Alignment explanation
Indices: 47357630--47357769 Score: 271
Period size: 71 Copynumber: 2.0 Consensus size: 71
47357620 AAAAACAACT
*
47357630 TTTTTTCACTCTTTTCTTTGATTTGTAAAACCTACACCAAACTTTTCTTTAATTATATATTGCTT
1 TTTTTTCACTCTTTTCTTTGATTTGTAAAACCTAAACCAAACTTTTCTTTAATTATATATTGCTT
47357695 ATTGAC
66 ATTGAC
47357701 TTTTTTCACTCTTTTCTTTGATTTGTAAAACCTAAACCAAACTTTTCTTTAATTATATATTGCTT
1 TTTTTTCACTCTTTTCTTTGATTTGTAAAACCTAAACCAAACTTTTCTTTAATTATATATTGCTT
47357766 ATTG
66 ATTG
47357770 GATTGTCTTC
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 68 1.00
ACGTcount: A:0.26, C:0.17, G:0.06, T:0.51
Consensus pattern (71 bp):
TTTTTTCACTCTTTTCTTTGATTTGTAAAACCTAAACCAAACTTTTCTTTAATTATATATTGCTT
ATTGAC
Found at i:47358478 original size:17 final size:17
Alignment explanation
Indices: 47358456--47358492 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
47358446 TAAGAAAGAA
47358456 TAATTAAAAAATTTAAT
1 TAATTAAAAAATTTAAT
**
47358473 TAATTAAAATTTTTAAT
1 TAATTAAAAAATTTAAT
47358490 TAA
1 TAA
47358493 AAATCTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TAATTAAAAAATTTAAT
Found at i:47364629 original size:17 final size:17
Alignment explanation
Indices: 47364589--47364694 Score: 65
Period size: 17 Copynumber: 6.2 Consensus size: 17
47364579 ACACAATTTC
*
47364589 TTTAAAA-ACGAGAA-T
1 TTTAAAACACGAAAATT
*
47364604 TTTAGAAACATGAAAATT
1 TTTA-AAACACGAAAATT
* *
47364622 TTTAAAACACGACAACT
1 TTTAAAACACGAAAATT
* * *
47364639 TTTGAAGCATGAGAAATT
1 TTTAAAACACGA-AAATT
**
47364657 TATTCAAAACAC-AAAAAA
1 T-TT-AAAACACGAAAATT
*
47364675 TTTAAAACACGAACATT
1 TTTAAAACACGAAAATT
47364692 TTT
1 TTT
47364695 TGAAACAATT
Statistics
Matches: 66, Mismatches: 18, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
15 4 0.06
16 10 0.15
17 32 0.48
18 13 0.20
19 3 0.05
20 4 0.06
ACGTcount: A:0.49, C:0.12, G:0.09, T:0.29
Consensus pattern (17 bp):
TTTAAAACACGAAAATT
Found at i:47364740 original size:17 final size:17
Alignment explanation
Indices: 47364714--47365232 Score: 120
Period size: 17 Copynumber: 29.0 Consensus size: 17
47364704 TTTTATTTTT
*
47364714 ATTTTT-AAACAAGAAA
1 ATTTTTAAAACACGAAA
*
47364730 ATTTTTAAAACACGAGA
1 ATTTTTAAAACACGAAA
*
47364747 A-TTTTAGAGACACGAAA
1 ATTTTTA-AAACACGAAA
*
47364764 ATTCTTAAAACACGAAA
1 ATTTTTAAAACACGAAA
* * *
47364781 ATTTTGAGAACACGACA
1 ATTTTTAAAACACGAAA
* * *
47364798 ATTTTAAAATACGCGAAT
1 ATTTTTAAA-ACACGAAA
* **
47364816 TTTTTTGAAAAC-CTGATTT
1 ATTTTT-AAAACAC-GA-AA
* * * *
47364835 TTTTTTGAAGCGCGAAA
1 ATTTTTAAAACACGAAA
** * * *
47364852 ATTCGTGAAACATGAGA
1 ATTTTTAAAACACGAAA
*
47364869 ATTGTTGAAAACACGAAA
1 ATT-TTTAAAACACGAAA
* *
47364887 ATTTTTGAAACATGAAA
1 ATTTTTAAAACACGAAA
47364904 ATTTTTTGAAAACAC-AAA
1 A-TTTTT-AAAACACGAAA
* ** * * **
47364922 TTTTTTTTTTGATCATGGGA
1 ---ATTTTTAAAACACGAAA
**
47364942 ATTTTTGAAAACGTGAAA
1 ATTTTT-AAAACACGAAA
*
47364960 ATTTTTGAAACACGAAA
1 ATTTTTAAAACACGAAA
*
47364977 GTTTTTTTTAAAAAGAACACGAAA
1 ---ATTTTT---AA-AACACGAAA
**
47365001 ATTTTTTTTGAACACGAGAAA
1 A--TTTTTAAAACAC--GAAA
*
47365022 ATTTTTTGAAAACATGAAA
1 A-TTTTT-AAAACACGAAA
* * *
47365041 AATTTTGAAACACCAAA
1 ATTTTTAAAACACGAAA
* * *
47365058 ATCTTGAAAACACGAAG
1 ATTTTTAAAACACGAAA
**
47365075 ATTTTTGAAAACA--ATT
1 ATTTTT-AAAACACGAAA
*
47365091 ATTATTTAAAAAAAACGAAA
1 ATT-TTT--AAAACACGAAA
* *
47365111 ATTTATGAAACAC-AAGA
1 ATTTTTAAAACACGAA-A
* *
47365128 TTTTTTAAAAAAACACAAAA
1 ATTTTT---AAAACACGAAA
*
47365148 ATTTTCAAAACACTG-AA
1 ATTTTTAAAACAC-GAAA
* **
47365165 ATTTTTGAAACACGAGG
1 ATTTTTAAAACACGAAA
47365182 A-TTTTAAAACACGCAAA
1 ATTTTTAAAACACG-AAA
**
47365199 ATTTTGGAAACACGAAA
1 ATTTTTAAAACACGAAA
* *
47365216 ATTTTTGAAATACGAAA
1 ATTTTTAAAACACGAAA
47365233 TTATTTTTTT
Statistics
Matches: 358, Mismatches: 103, Indels: 83
0.66 0.19 0.15
Matches are distributed among these distances:
16 29 0.08
17 163 0.46
18 77 0.22
19 31 0.09
20 32 0.09
21 11 0.03
23 6 0.02
24 9 0.03
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.31
Consensus pattern (17 bp):
ATTTTTAAAACACGAAA
Found at i:47364909 original size:18 final size:17
Alignment explanation
Indices: 47364857--47364914 Score: 71
Period size: 18 Copynumber: 3.3 Consensus size: 17
47364847 CGAAAATTCG
* *
47364857 TGAAACATGAGAATTGT
1 TGAAACATGAAAATTTT
*
47364874 TGAAAACACGAAAATTTT
1 TG-AAACATGAAAATTTT
47364892 TGAAACATGAAAATTTTT
1 TGAAACATGAAAA-TTTT
47364910 TGAAA
1 TGAAA
47364915 ACACAAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
17 12 0.34
18 23 0.66
ACGTcount: A:0.47, C:0.07, G:0.16, T:0.31
Consensus pattern (17 bp):
TGAAACATGAAAATTTT
Found at i:47364927 original size:35 final size:35
Alignment explanation
Indices: 47364714--47364927 Score: 109
Period size: 35 Copynumber: 6.2 Consensus size: 35
47364704 TTTTATTTTT
* * *
47364714 ATTTTT-AAACAAGAAAATT-TTTAAAACACGAGA
1 ATTTTTGAAACATGAAAATTGTTGAAAACACGAAA
* * * *
47364747 ATTTTAGAGACACGAAAATTCTT-AAAACACGAAA
1 ATTTTTGAAACATGAAAATTGTTGAAAACACGAAA
* * * * *
47364781 A-TTTTGAGAACACGACAATT-TTAAAATACGCGAAT
1 ATTTTTGA-AACATGAAAATTGTTGAAA-ACACGAAA
* * *** * * *
47364816 TTTTTTGAAAACCTGATTTTTTTTTG-AAGCGCGAAA
1 ATTTTTG-AAACATGA-AAATTGTTGAAAACACGAAA
** *
47364852 ATTCGTGAAACATGAGAATTGTTGAAAACACGAAA
1 ATTTTTGAAACATGAAAATTGTTGAAAACACGAAA
*
47364887 ATTTTTGAAACATGAAAATTTTTTGAAAACAC-AAA
1 ATTTTTGAAACATGAAAA-TTGTTGAAAACACGAAA
*
47364922 TTTTTT
1 ATTTTT
47364928 TTTTGATCAT
Statistics
Matches: 137, Mismatches: 33, Indels: 20
0.72 0.17 0.11
Matches are distributed among these distances:
33 12 0.09
34 40 0.29
35 46 0.34
36 32 0.23
37 5 0.04
38 2 0.01
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (35 bp):
ATTTTTGAAACATGAAAATTGTTGAAAACACGAAA
Found at i:47365035 original size:21 final size:21
Alignment explanation
Indices: 47364997--47365046 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
47364987 AAAAGAACAC
***
47364997 GAAAATTTTTTTTGAACACGA
1 GAAAATTTTTTGAAAACACGA
*
47365018 GAAAATTTTTTGAAAACATGA
1 GAAAATTTTTTGAAAACACGA
47365039 -AAAATTTT
1 GAAAATTTT
47365047 GAAACACCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (21 bp):
GAAAATTTTTTGAAAACACGA
Found at i:47365046 original size:18 final size:17
Alignment explanation
Indices: 47365006--47365087 Score: 58
Period size: 18 Copynumber: 4.6 Consensus size: 17
47364996 CGAAAATTTT
* *
47365006 TTTTGAACACGAGAAAATT
1 TTTTGAAAAC-AGAAAA-A
47365025 TTTTGAAAACATGAAAAA
1 TTTTGAAAACA-GAAAAA
**
47365043 TTTTG-AAACACCAAAA
1 TTTTGAAAACAGAAAAA
* * *
47365059 TCTTGAAAACACGAAGAT
1 TTTTGAAAACA-GAAAAA
47365077 TTTTGAAAACA
1 TTTTGAAAACA
47365088 ATTATTATTT
Statistics
Matches: 50, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
16 8 0.16
17 10 0.20
18 18 0.36
19 14 0.28
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.28
Consensus pattern (17 bp):
TTTTGAAAACAGAAAAA
Found at i:47365149 original size:37 final size:37
Alignment explanation
Indices: 47365064--47365159 Score: 108
Period size: 36 Copynumber: 2.6 Consensus size: 37
47365054 CAAAATCTTG
* * *
47365064 AAAACACGAAGATTTTTGAAAACAATTATTATTTAAA
1 AAAACACGAAAATTTATGAAAACAATGATTATTTAAA
*
47365101 AAAA-ACGAAAATTTATGAAACACAA-GATTTTTTAAA
1 AAAACACGAAAATTTATGAAA-ACAATGATTATTTAAA
* *
47365137 AAAACACAAAAATTT-TCAAAACA
1 AAAACACGAAAATTTATGAAAACA
47365160 CTGAAATTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
35 3 0.06
36 31 0.61
37 17 0.33
ACGTcount: A:0.56, C:0.10, G:0.06, T:0.27
Consensus pattern (37 bp):
AAAACACGAAAATTTATGAAAACAATGATTATTTAAA
Found at i:47365152 original size:20 final size:20
Alignment explanation
Indices: 47365118--47365157 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
47365108 AAAATTTATG
* * *
47365118 AAACACAAGATTTTTTAAAA
1 AAACACAAAAATTTTCAAAA
47365138 AAACACAAAAATTTTCAAAA
1 AAACACAAAAATTTTCAAAA
47365158 CACTGAAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.60, C:0.12, G:0.03, T:0.25
Consensus pattern (20 bp):
AAACACAAAAATTTTCAAAA
Found at i:47365239 original size:18 final size:19
Alignment explanation
Indices: 47365188--47365239 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 19
47365178 GAGGATTTTA
*
47365188 AAACACGCAAA-ATTTTGG
1 AAACACGAAAATATTTTGG
47365206 AAACACGAAAAT-TTTT-G
1 AAACACGAAAATATTTTGG
* *
47365223 AAATACGAAATTATTTT
1 AAACACGAAAATATTTT
47365240 TTTTAAAACG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 11 0.38
18 18 0.62
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.31
Consensus pattern (19 bp):
AAACACGAAAATATTTTGG
Found at i:47365859 original size:8 final size:8
Alignment explanation
Indices: 47365835--47365897 Score: 55
Period size: 7 Copynumber: 8.4 Consensus size: 8
47365825 ATTGAACCCC
47365835 CTTTTTCTT
1 CTTTTT-TT
*
47365844 CCTTTTTT
1 CTTTTTTT
47365852 C--TTTTT
1 CTTTTTTT
47365858 -TTTTTTT
1 CTTTTTTT
47365865 -TTTTTTT
1 CTTTTTTT
47365872 C-TTTTTT
1 CTTTTTTT
*
47365879 CCTTTTTT
1 CTTTTTTT
*
47365887 CTTCTTTT
1 CTTTTTTT
47365895 CTT
1 CTT
47365898 CCTTTTTTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
6 5 0.11
7 19 0.40
8 18 0.38
9 5 0.11
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (8 bp):
CTTTTTTT
Found at i:47365868 original size:19 final size:20
Alignment explanation
Indices: 47365845--47365910 Score: 78
Period size: 22 Copynumber: 3.1 Consensus size: 20
47365835 CTTTTTCTTC
47365845 CTTTTTTCTTTTTTTTTTTT
1 CTTTTTTCTTTTTTTTTTTT
*
47365865 TTTTTTTCTTTTTTCCTTTTTT
1 CTTTTTTCTTTTTT--TTTTTT
*
47365887 CTTCTTTTCTTCCTTTTTTTTT
1 CTT-TTTTCTT-TTTTTTTTTT
47365909 CT
1 CT
47365911 GTGGCTGCCT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
20 13 0.33
22 16 0.41
23 7 0.18
24 3 0.08
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (20 bp):
CTTTTTTCTTTTTTTTTTTT
Found at i:47365875 original size:27 final size:27
Alignment explanation
Indices: 47365836--47365905 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
47365826 TTGAACCCCC
* *
47365836 TTTTTCTTCCTTTTTTCTTTTTTTTTT
1 TTTTTCTTCCTTTTTTCCTTTTTTCTT
* *
47365863 TTTTTTTTTCTTTTTTCCTTTTTTCTT
1 TTTTTCTTCCTTTTTTCCTTTTTTCTT
*
47365890 CTTTTCTTCCTTTTTT
1 TTTTTCTTCCTTTTTT
47365906 TTTCTGTGGC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (27 bp):
TTTTTCTTCCTTTTTTCCTTTTTTCTT
Found at i:47365898 original size:8 final size:8
Alignment explanation
Indices: 47365837--47365903 Score: 52
Period size: 8 Copynumber: 8.5 Consensus size: 8
47365827 TGAACCCCCT
47365837 TTTTCTTCC
1 TTTTCTT-C
47365846 TTTT-TTC
1 TTTTCTTC
*
47365853 TTTT-TTT
1 TTTTCTTC
* *
47365860 TTTTTTTT
1 TTTTCTTC
47365868 TTTTCTT-
1 TTTTCTTC
47365875 TTTTCCTT-
1 TTTT-CTTC
47365883 TTTTCTTC
1 TTTTCTTC
47365891 TTTTCTTCC
1 TTTTCTT-C
47365900 TTTT
1 TTTT
47365904 TTTTTCTGTG
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
7 18 0.35
8 25 0.48
9 9 0.17
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTCTTC
Found at i:47366049 original size:10 final size:10
Alignment explanation
Indices: 47366034--47366063 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
47366024 CTTCTTTCCC
47366034 CTTTTTTTTG
1 CTTTTTTTTG
*
47366044 CTTTTTTTTT
1 CTTTTTTTTG
47366054 CTTTTTTTTG
1 CTTTTTTTTG
47366064 TTGGGCTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (10 bp):
CTTTTTTTTG
Found at i:47366183 original size:10 final size:10
Alignment explanation
Indices: 47366168--47366210 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
47366158 ACTGTTAAAA
47366168 TTTTTTTTTC
1 TTTTTTTTTC
47366178 TTTTTTTTTC
1 TTTTTTTTTC
* *
47366188 TTTCTTCTTC
1 TTTTTTTTTC
* *
47366198 TTCTTCTTTC
1 TTTTTTTTTC
47366208 TTT
1 TTT
47366211 CTTCTTCTTC
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:47366195 original size:3 final size:3
Alignment explanation
Indices: 47366189--47366235 Score: 76
Period size: 3 Copynumber: 15.0 Consensus size: 3
47366179 TTTTTTTTCT
47366189 TTC TTC TTC TTC TTC TTTC TTTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC -TTC -TTC TTC TTC TTC TTC TTC TTC TTC TTC
47366236 AAAACCGAGC
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 36 0.84
4 7 0.16
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:47366202 original size:23 final size:23
Alignment explanation
Indices: 47366176--47366235 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
47366166 AATTTTTTTT
*
47366176 TCTT-TTTTTTTCTTTCTTCTTCT
1 TCTTCTTTCTTTC-TTCTTCTTCT
47366199 TCTTCTTTCTTTCTTCTTCTTCT
1 TCTTCTTTCTTTCTTCTTCTTCT
47366222 TCTTC-TTC-TTCTTC
1 TCTTCTTTCTTTCTTC
47366236 AAAACCGAGC
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
21 6 0.17
22 3 0.09
23 19 0.54
24 7 0.20
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (23 bp):
TCTTCTTTCTTTCTTCTTCTTCT
Found at i:47366207 original size:20 final size:20
Alignment explanation
Indices: 47366184--47366235 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
47366174 TTTCTTTTTT
47366184 TTTCTTTCTTCTTCTTCTTC
1 TTTCTTTCTTCTTCTTCTTC
47366204 TTTCTTTCTTCTTCTTCTTC
1 TTTCTTTCTTCTTCTTCTTC
47366224 -TTC-TTCTTCTTC
1 TTTCTTTCTTCTTC
47366236 AAAACCGAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.28
19 3 0.09
20 20 0.62
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTCTTTCTTCTTCTTCTTC
Found at i:47366646 original size:30 final size:30
Alignment explanation
Indices: 47366609--47366709 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
47366599 ATTTAGGATT
*
47366609 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
47366639 TAAATGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
47366669 AAAATGAAATTT-AGGAAAAG-TTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
47366698 AAAATGCAATTT
1 AAAATGAAATTT
47366710 TTATTTTTTA
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
29 21 0.33
30 42 0.67
ACGTcount: A:0.46, C:0.04, G:0.22, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:47366693 original size:59 final size:59
Alignment explanation
Indices: 47366575--47366709 Score: 150
Period size: 59 Copynumber: 2.3 Consensus size: 59
47366565 CAAAACTTCT
* ** * *
47366575 GGGG-CTAAATGTAATTTTTAGAAAATTTAGGATTAAAATGAAATTTAATGAAAGTTTA
1 GGGGTCTAAATGAAATTTAAAGAAAATTTAGGATCAAAATGAAATTTAAGGAAAGTTTA
* *
47366633 GGGGTCTAAATGAAATTTAAAGAAAGTTTAAGGGTCAAAATGAAATTT-AGGAAAAG-TTA
1 GGGGTCTAAATGAAATTTAAAGAAAATTT-AGGATCAAAATGAAATTTAAGG-AAAGTTTA
* *
47366692 GGGGTCAAAATGCAATTT
1 GGGGTCTAAATGAAATTT
47366710 TTATTTTTTA
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
58 4 0.06
59 41 0.63
60 20 0.31
ACGTcount: A:0.43, C:0.04, G:0.22, T:0.31
Consensus pattern (59 bp):
GGGGTCTAAATGAAATTTAAAGAAAATTTAGGATCAAAATGAAATTTAAGGAAAGTTTA
Found at i:47366697 original size:29 final size:29
Alignment explanation
Indices: 47366591--47366709 Score: 120
Period size: 30 Copynumber: 4.1 Consensus size: 29
47366581 AAATGTAATT
* *
47366591 TTTAGAAAA-TTTA-GGATTAAAATGAAA
1 TTTAGAAAAGTTTAGGGGTCAAAATGAAA
*
47366618 TTTA-ATGAAAGTTTAGGGGTCTAAATGAAA
1 TTTAGA--AAAGTTTAGGGGTCAAAATGAAA
* *
47366648 TTTAAAGAAAGTTTAAGGGTCAAAATGAAA
1 TTTAGA-AAAGTTTAGGGGTCAAAATGAAA
*
47366678 TTTAGGAAAAG-TTAGGGGTCAAAATGCAA
1 TTTA-GAAAAGTTTAGGGGTCAAAATGAAA
47366707 TTT
1 TTT
47366710 TTATTTTTTA
Statistics
Matches: 78, Mismatches: 8, Indels: 10
0.81 0.08 0.10
Matches are distributed among these distances:
26 1 0.01
27 4 0.05
28 3 0.04
29 23 0.29
30 45 0.58
31 2 0.03
ACGTcount: A:0.45, C:0.03, G:0.21, T:0.31
Consensus pattern (29 bp):
TTTAGAAAAGTTTAGGGGTCAAAATGAAA
Found at i:47367105 original size:50 final size:51
Alignment explanation
Indices: 47366980--47367181 Score: 291
Period size: 50 Copynumber: 3.8 Consensus size: 51
47366970 CACGTGAGCC
* *
47366980 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAGAA--T--AA
47367035 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAATAG-A-AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAATAGAATAA
*
47367085 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAATAG-AA-TAA
47367139 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
47367182 ACAGAAATTG
Statistics
Matches: 137, Mismatches: 4, Indels: 14
0.88 0.03 0.09
Matches are distributed among these distances:
49 6 0.04
50 41 0.30
52 1 0.01
53 4 0.03
54 40 0.29
55 33 0.24
56 12 0.09
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.30
Consensus pattern (51 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAGAATAA
Found at i:47367165 original size:54 final size:54
Alignment explanation
Indices: 47366980--47367196 Score: 311
Period size: 54 Copynumber: 4.1 Consensus size: 54
47366970 CACGTGAGCC
* *
47366980 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTG-AA
*
47367035 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAATAG--A---AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAAATTGAA
* *
47367085 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATT-AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTGAA
47367139 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTGAA
47367194 AAG
1 AAG
47367197 TAGAAATTGA
Statistics
Matches: 149, Mismatches: 6, Indels: 14
0.88 0.04 0.08
Matches are distributed among these distances:
49 6 0.04
50 41 0.28
52 1 0.01
54 52 0.35
55 37 0.25
56 12 0.08
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.29
Consensus pattern (54 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAA
Found at i:47367188 original size:104 final size:104
Alignment explanation
Indices: 47366980--47367188 Score: 332
Period size: 104 Copynumber: 2.0 Consensus size: 104
47366970 CACGTGAGCC
* *
47366980 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTTGCAAAAGGCTCAAC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATT-CAAAAGGCTCAAC
*
47367045 TCACCTCTCGCAATATGAGTTGATTTTTTGAAAATAGAAA
65 TCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAA
* *
47367085 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATT-AAAAGGCTCAAC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTCAAAAGGCTCAAC
47367149 TCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAA
65 TCACCTCTCGCAATATGAGTTGATTTTTTG-AAAACAGAAA
47367189 TTGAAAAGTA
Statistics
Matches: 97, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
103 6 0.06
104 44 0.45
105 37 0.38
106 10 0.10
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.29
Consensus pattern (104 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTCAAAAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAA
Found at i:47367194 original size:14 final size:14
Alignment explanation
Indices: 47367175--47367209 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
47367165 GAGTTGATTT
47367175 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
**
47367189 TTGAAAAGTAGAAA
1 TTGAAAAACAGAAA
47367203 TTGAAAA
1 TTGAAAA
47367210 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.03, G:0.17, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:47367303 original size:15 final size:15
Alignment explanation
Indices: 47367283--47367311 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
47367273 TTTTTGAAAC
47367283 ACAGAAATTAAAAAA
1 ACAGAAATTAAAAAA
47367298 ACAGAAATTAAAAA
1 ACAGAAATTAAAAA
47367312 CAGAATTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.14
Consensus pattern (15 bp):
ACAGAAATTAAAAAA
Found at i:47367312 original size:13 final size:14
Alignment explanation
Indices: 47367283--47367316 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
47367273 TTTTTGAAAC
47367283 ACAGAAATTAAAAAA
1 ACAGAAATT-AAAAA
47367298 ACAGAAATT-AAAA
1 ACAGAAATTAAAAA
47367311 ACAGAA
1 ACAGAA
47367317 TTTGAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.53
15 9 0.47
ACGTcount: A:0.71, C:0.09, G:0.09, T:0.12
Consensus pattern (14 bp):
ACAGAAATTAAAAA
Found at i:47367451 original size:85 final size:87
Alignment explanation
Indices: 47367307--47367554 Score: 290
Period size: 85 Copynumber: 2.8 Consensus size: 87
47367297 AACAGAAATT
* * *
47367307 AAAAACAGAATTTGAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCACCTCTTGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAG
*
47367372 TTGATTTGAAAAG-TAGAATT-AG
65 TTGATTTGAAAAGATAG-ATTGAA
* * * *
47367394 TAAAGCAGAAATTGAAAATACCTCAGC-GT-GCCTTGAGGCTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGAAATTGAAAATACCTCAGCTGTGGCC-TGAGGCTCAACTCACCTCTTGCAATATGAG
*
47367457 TTGATTTTTGAGAAGCATAGATTGAA
65 TTGA--TTTGAAAAG-ATAGATTGAA
* *
47367483 AAAAACATAAATTGAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCATCTCTTGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTG-GCCTGAGGCTCAACTCACCTCTTGCAATATGA
47367547 GTTGATTT
64 GTTGATTT
47367555 TTGAAAAACA
Statistics
Matches: 136, Mismatches: 15, Indels: 18
0.80 0.09 0.11
Matches are distributed among these distances:
84 3 0.02
85 33 0.24
87 31 0.23
88 3 0.02
89 31 0.23
91 32 0.24
93 3 0.02
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (87 bp):
AAAAACAGAAATTGAAAATACCTCAGCTGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAGT
TGATTTGAAAAGATAGATTGAA
Found at i:47367543 original size:91 final size:88
Alignment explanation
Indices: 47367307--47367561 Score: 306
Period size: 91 Copynumber: 2.9 Consensus size: 88
47367297 AACAGAAATT
* * *
47367307 AAAAACAGAATTTGAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCACCTCTTGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAG
*
47367372 TTGA--TTTGAAAAGTAGAATTAG
65 TTGATTTTTGAAAAGTAGAATTAA
* * * *
47367394 TAAAGCAGAAATTGAAAATACCTCAGC-GT-GCCTTGAGGCTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGAAATTGAAAATACCTCAGCTGTGGCC-TGAGGCTCAACTCACCTCTTGCAATATGAG
*
47367457 TTGATTTTTGAGAAGCATAG-ATTGAA
65 TTGATTTTTGAAAAG--TAGAATT-AA
* *
47367483 AAAAACATAAATTGAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCATCTCTTGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTG-GCCTGAGGCTCAACTCACCTCTTGCAATATGA
47367547 GTTGATTTTTGAAAA
64 GTTGATTTTTGAAAA
47367562 ACAAAAATTA
Statistics
Matches: 142, Mismatches: 16, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
84 3 0.02
85 33 0.23
87 31 0.22
88 3 0.02
89 28 0.20
91 41 0.29
93 3 0.02
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (88 bp):
AAAAACAGAAATTGAAAATACCTCAGCTGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAGT
TGATTTTTGAAAAGTAGAATTAA
Found at i:47367852 original size:192 final size:192
Alignment explanation
Indices: 47367519--47368320 Score: 1470
Period size: 192 Copynumber: 4.2 Consensus size: 192
47367509 CATGTGAGCC
* *
47367519 GAGGCTCAACTCATCTCTTGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTTAACT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTGAAAAACAAAAATTAAAAGGCTTAACT
47367584 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTC-GCGTGCCCCGAGGCTC
65 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
*
47367648 AACTCATTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATA-CTCAACGTGTCTT
130 AACTCACTTCTCGCAATATGAGTTGATTTTTTTT-AAAAATTTAAAAATACCTCAACGTGTCTT
47367711 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
47367776 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
** *
47367841 ACTCGTTTCTCGCAATATGAGTTGATTTTTTTT-TAAATTTAAAAATACCTCAACGTGTC-T
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTT
47367901 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
*
47367966 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACT-AAAATACCTCGGCGTGCCCCGAGGTTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
47368030 ACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTT
47368092 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
47368157 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
*
47368222 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTT
*
47368284 GAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
47368321 CCTTGGAAAG
Statistics
Matches: 594, Mismatches: 11, Indels: 10
0.97 0.02 0.02
Matches are distributed among these distances:
189 58 0.10
190 140 0.24
191 192 0.32
192 204 0.34
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (192 bp):
GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
ACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTT
Found at i:47367872 original size:191 final size:192
Alignment explanation
Indices: 47367519--47368320 Score: 1461
Period size: 191 Copynumber: 4.2 Consensus size: 192
47367509 CATGTGAGCC
* *
47367519 GAGGCTCAACTCATCTCTTGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTTAACT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTGAAAAACAAAAATTAAAAGGCTTAACT
47367584 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTC-GCGTGCCCCGAGGCTC
65 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
*
47367648 AACTCATTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATA-CTCAACGTGTCTT
130 AACTCACTTCTCGCAATATGAGTTGA-TTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
47367711 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
47367776 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
** **
47367841 ACTCGTTTCTCGCAATATGAGTTGATTTTTTT-TTAAATTTAAAAATACCTCAACGTGTC-T
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
47367901 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
*
47367966 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACT-AAAATACCTCGGCGTGCCCCGAGGTTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
*
47368030 ACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
47368092 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
47368157 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
47368222 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
*
47368284 GAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
47368321 CCTTGGAAAG
Statistics
Matches: 592, Mismatches: 13, Indels: 10
0.96 0.02 0.02
Matches are distributed among these distances:
189 57 0.10
190 140 0.24
191 199 0.34
192 196 0.33
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (192 bp):
GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
Found at i:47380276 original size:17 final size:16
Alignment explanation
Indices: 47380224--47380328 Score: 68
Period size: 17 Copynumber: 6.2 Consensus size: 16
47380214 ACACAATTTC
*
47380224 TTTAAAA-ACGAGAAT
1 TTTAAAACACGAAAAT
*
47380239 TTTAGAAACATGAAAATT
1 TTTA-AAACACGAAAA-T
*
47380257 TTTAAAACACGACAACT
1 TTTAAAACACGA-AAAT
* *
47380274 TTTGAAGCACGAGAAATT
1 TTTAAAACACGA-AAA-T
* *
47380292 TATTCAAAACACAAAAAA
1 T-TT-AAAACACGAAAAT
*
47380310 TTTAAAACACGAACAT
1 TTTAAAACACGAAAAT
47380326 TTT
1 TTT
47380329 TTGAAACAAT
Statistics
Matches: 68, Mismatches: 15, Indels: 13
0.71 0.16 0.14
Matches are distributed among these distances:
15 4 0.06
16 16 0.24
17 27 0.40
18 10 0.15
19 5 0.07
20 6 0.09
ACGTcount: A:0.50, C:0.13, G:0.10, T:0.28
Consensus pattern (16 bp):
TTTAAAACACGAAAAT
Found at i:47380399 original size:34 final size:34
Alignment explanation
Indices: 47380361--47380425 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
47380351 TTTAAACAAG
* *
47380361 AAAAATTTTTAAAACACGAGAATTTTAGAGACAC
1 AAAAATTCTTAAAACACGAAAATTTTAGAGACAC
*
47380395 AAAAATTCTTAAAACACGAAAATTTTTGAGA
1 AAAAATTCTTAAAACACGAAAATTTTAGAGA
47380426 ACACGATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.28
Consensus pattern (34 bp):
AAAAATTCTTAAAACACGAAAATTTTAGAGACAC
Found at i:47380428 original size:18 final size:18
Alignment explanation
Indices: 47380362--47380888 Score: 176
Period size: 18 Copynumber: 28.7 Consensus size: 18
47380352 TTAAACAAGA
47380362 AAAATTTTT-AAAACACG
1 AAAATTTTTGAAAACACG
* * * *
47380379 AGAATTTTAG-AGACACA
1 AAAATTTTTGAAAACACG
*
47380396 AAAATTCTT-AAAACACG
1 AAAATTTTTGAAAACACG
*
47380413 AAAATTTTTGAGAACACG
1 AAAATTTTTGAAAACACG
* *
47380431 ATAA-TTTTGAAATACGCG
1 AAAATTTTTGAAA-ACACG
**
47380449 AATTTTTTTGAAAAC-CTG
1 AAAATTTTTGAAAACAC-G
*** * *
47380467 ATTTTTTTTG-AAGCGCG
1 AAAATTTTTGAAAACACG
** *
47380484 AAAATTCGTG-AAACATG
1 AAAATTTTTGAAAACACG
* *
47380501 AGAATTGTTGAAAACACG
1 AAAATTTTTGAAAACACG
47380519 AAAATTTTTGAAAACACG
1 AAAATTTTTGAAAACACG
*
47380537 AAAATTTTTG-AAACATG
1 AAAATTTTTGAAAACACG
47380554 AAAATTTTTTTGAAAACAC-
1 AAAA--TTTTTGAAAACACG
*** * *
47380573 AAAATTTTTTTTTTGATCATG
1 AAAA---TTTTTGAAAACACG
** **
47380594 GGAATTTTTGAAAACGTG
1 AAAATTTTTGAAAACACG
47380612 AAAATTTTTG-AAACACG
1 AAAATTTTTGAAAACACG
* *
47380629 AAAGTTTTTTTTAAAAAAAGAACACG
1 AAA---ATTTTT----GAA-AACACG
*
47380655 AAAAATTTTTTTTTGAACACGA-G
1 -AAAA----TTTTTGAAAAC-ACG
*
47380678 AAAATTTTTTGAAAACATG
1 AAAA-TTTTTGAAAACACG
*
47380697 AAAAATTTTG-AAACACCG
1 AAAATTTTTGAAAACA-CG
*
47380715 -AAA-TCTTGAAAACACG
1 AAAATTTTTGAAAACACG
* **
47380731 AAGATTTTTGAAAACAATT
1 AAAATTTTTGAAAAC-ACG
* * * *
47380750 ATTATTTTTTTAAAAAACG
1 A-AAATTTTTGAAAACACG
*
47380769 AAAATTTATG-AAACAC-
1 AAAATTTTTGAAAACACG
* **
47380785 AAGATTTTAAAAAAAAACAC-
1 AAAATTTT---TGAAAACACG
* *
47380805 AAAAATTTTCAAAACACTG
1 AAAATTTTTGAAAACAC-G
47380824 -AAATTTTTGAAAACACG
1 AAAATTTTTGAAAACACG
**
47380841 AGGATTTTT-AAAACACG
1 AAAATTTTTGAAAACACG
*
47380858 CAAAA-TTTTGGAAACACG
1 -AAAATTTTTGAAAACACG
47380876 AAAATTTTTGAAA
1 AAAATTTTTGAAA
47380889 TACAAAATTA
Statistics
Matches: 373, Mismatches: 92, Indels: 89
0.67 0.17 0.16
Matches are distributed among these distances:
16 12 0.03
17 121 0.32
18 134 0.36
19 38 0.10
20 41 0.11
21 2 0.01
22 4 0.01
23 3 0.01
24 3 0.01
25 1 0.00
26 6 0.02
27 3 0.01
28 5 0.01
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.32
Consensus pattern (18 bp):
AAAATTTTTGAAAACACG
Found at i:47380521 original size:35 final size:35
Alignment explanation
Indices: 47380482--47380559 Score: 86
Period size: 35 Copynumber: 2.2 Consensus size: 35
47380472 TTTTGAAGCG
* *
47380482 CGAAAATTCGTG-AAACATGAGAATTGTTGAAAACA
1 CGAAAATTCGTGAAAACACGAAAATTGTTG-AAACA
** *
47380517 CGAAAATTTTTGAAAACACGAAAATTTTTGAAACA
1 CGAAAATTCGTGAAAACACGAAAATTGTTGAAACA
*
47380552 TGAAAATT
1 CGAAAATT
47380560 TTTTTGAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
35 22 0.61
36 14 0.39
ACGTcount: A:0.47, C:0.10, G:0.15, T:0.27
Consensus pattern (35 bp):
CGAAAATTCGTGAAAACACGAAAATTGTTGAAACA
Found at i:47380705 original size:19 final size:19
Alignment explanation
Indices: 47380664--47380709 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
47380654 GAAAAATTTT
* *
47380664 TTTTTGAACACGAGAAAAT
1 TTTTTGAAAACGAGAAAAA
47380683 TTTTTGAAAAC-ATGAAAAA
1 TTTTTGAAAACGA-GAAAAA
47380702 -TTTTGAAA
1 TTTTTGAAA
47380710 CACCGAAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.35
Consensus pattern (19 bp):
TTTTTGAAAACGAGAAAAA
Found at i:47380897 original size:16 final size:16
Alignment explanation
Indices: 47380858--47380897 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
47380848 TTAAAACACG
47380858 CAAAATTTTGGAAACA
1 CAAAATTTTGGAAACA
* *
47380874 CGAAAATTTTTGAAATA
1 C-AAAATTTTGGAAACA
47380891 CAAAATT
1 CAAAATT
47380898 ATTTTTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (16 bp):
CAAAATTTTGGAAACA
Found at i:47381529 original size:7 final size:7
Alignment explanation
Indices: 47381517--47381568 Score: 77
Period size: 7 Copynumber: 7.0 Consensus size: 7
47381507 CTTTTTCTTC
47381517 CTTTTTT
1 CTTTTTT
47381524 CTTTTTT
1 CTTTTTT
47381531 CTTTTTT
1 CTTTTTT
47381538 CTTTTTTT
1 C-TTTTTT
47381546 CTTTTTT
1 CTTTTTT
47381553 CCTTTTTT
1 -CTTTTTT
47381561 CTTCTTTT
1 CTT-TTTT
47381569 TCTTCCTTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
7 24 0.57
8 18 0.43
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (7 bp):
CTTTTTT
Found at i:47381536 original size:8 final size:8
Alignment explanation
Indices: 47381507--47381572 Score: 75
Period size: 7 Copynumber: 8.4 Consensus size: 8
47381497 ATTGAACCCC
47381507 CTTTTTCTT
1 CTTTTT-TT
*
47381516 CCTTTTTT
1 CTTTTTTT
47381524 C-TTTTTT
1 CTTTTTTT
47381531 C-TTTTTT
1 CTTTTTTT
47381538 CTTTTTTT
1 CTTTTTTT
47381546 C-TTTTTT
1 CTTTTTTT
*
47381553 CCTTTTTT
1 CTTTTTTT
47381561 CTTCTTTTT
1 CTT-TTTTT
47381570 CTT
1 CTT
47381573 CCTTTTTTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
7 21 0.40
8 18 0.35
9 13 0.25
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (8 bp):
CTTTTTTT
Found at i:47381543 original size:15 final size:15
Alignment explanation
Indices: 47381507--47381568 Score: 81
Period size: 15 Copynumber: 4.0 Consensus size: 15
47381497 ATTGAACCCC
47381507 CTTTTTCTTCCTTTTTT
1 CTTTTT-TT-CTTTTTT
47381524 C-TTTTTTCTTTTTT
1 CTTTTTTTCTTTTTT
47381538 CTTTTTTTCTTTTTT
1 CTTTTTTTCTTTTTT
*
47381553 CCTTTTTTCTTCTTTT
1 CTTTTTTTCTT-TTTT
47381569 TCTTCCTTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
14 8 0.19
15 25 0.60
16 8 0.19
17 1 0.02
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (15 bp):
CTTTTTTTCTTTTTT
Found at i:47381584 original size:22 final size:23
Alignment explanation
Indices: 47381519--47381572 Score: 92
Period size: 22 Copynumber: 2.3 Consensus size: 23
47381509 TTTTCTTCCT
47381519 TTTTTCTTTTTTCTTTTTTCTT-
1 TTTTTCTTTTTTCTTTTTTCTTC
47381541 TTTTTCTTTTTTCCTTTTTTCTTC
1 TTTTTCTTTTTT-CTTTTTTCTTC
47381565 TTTTTCTT
1 TTTTTCTT
47381573 CCTTTTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 12 0.40
23 10 0.33
24 8 0.27
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (23 bp):
TTTTTCTTTTTTCTTTTTTCTTC
Found at i:47381584 original size:37 final size:38
Alignment explanation
Indices: 47381509--47381581 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 38
47381499 TGAACCCCCT
* * *
47381509 TTTTCTTCCTTTTTTCTTTTTTCTTTTTTCTTTTTTTC
1 TTTTCTTCCTTTTTTCTTCTTTCTTCTTCCTTTTTTTC
47381547 TTTT-TTCCTTTTTTCTTCTTT-TTCTTCCTTTTTTT
1 TTTTCTTCCTTTTTTCTTCTTTCTTCTTCCTTTTTTT
47381582 TCTGCTGGGC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
36 12 0.38
37 16 0.50
38 4 0.12
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (38 bp):
TTTTCTTCCTTTTTTCTTCTTTCTTCTTCCTTTTTTTC
Found at i:47381861 original size:3 final size:3
Alignment explanation
Indices: 47381855--47381914 Score: 66
Period size: 3 Copynumber: 18.0 Consensus size: 3
47381845 AAATTTTTTT
47381855 TTC TTC TTTC TTC TTC TCTC TTTC TTTC TTTC TTC TTC TTC TTCC TTC
1 TTC TTC -TTC TTC TTC T-TC -TTC -TTC -TTC TTC TTC TTC TT-C TTC
47381903 TTC TTC TTC TTC
1 TTC TTC TTC TTC
47381915 AAAACTGAGC
Statistics
Matches: 53, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
3 34 0.64
4 18 0.34
5 1 0.02
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:47381870 original size:10 final size:10
Alignment explanation
Indices: 47381855--47381913 Score: 68
Period size: 10 Copynumber: 5.8 Consensus size: 10
47381845 AAATTTTTTT
47381855 TTCTTCTTTC
1 TTCTTCTTTC
*
47381865 TTCTTCTCTC
1 TTCTTCTTTC
47381875 TTTCTTTCTTTC
1 -TTC-TTCTTTC
47381887 TTCTTC-TTC
1 TTCTTCTTTC
47381896 TTCCTTC-TTC
1 TT-CTTCTTTC
47381906 TTCTTCTT
1 TTCTTCTT
47381914 CAAAACTGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
9 9 0.21
10 22 0.51
11 6 0.14
12 6 0.14
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (10 bp):
TTCTTCTTTC
Found at i:47381885 original size:22 final size:20
Alignment explanation
Indices: 47381854--47381914 Score: 88
Period size: 22 Copynumber: 3.0 Consensus size: 20
47381844 AAAATTTTTT
47381854 TTTCTTCTTTCTTCTTCTCTC
1 TTTCTTCTTTCTTCTTCT-TC
47381875 TTTCTTTCTTTCTTCTTCTTC
1 TTTC-TTCTTTCTTCTTCTTC
*
47381896 TTCCTTC-TTCTTCTTCTTC
1 TTTCTTCTTTCTTCTTCTTC
47381915 AAAACTGAGC
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
19 12 0.32
20 3 0.08
21 9 0.24
22 14 0.37
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTCTTCTTTCTTCTTCTTC
Found at i:47381890 original size:25 final size:23
Alignment explanation
Indices: 47381862--47381914 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 23
47381852 TTTTTCTTCT
*
47381862 TTCTTCTTCTCTCTTTCTTTCTTTC
1 TTCTTCTTCT-TCCTTCTTTC-TTC
47381887 TTCTTCTTCTTCCTTC-TTCTTC
1 TTCTTCTTCTTCCTTCTTTCTTC
47381909 TTCTTC
1 TTCTTC
47381915 AAAACTGAGC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 9 0.33
23 3 0.11
24 5 0.19
25 10 0.37
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (23 bp):
TTCTTCTTCTTCCTTCTTTCTTC
Found at i:47382324 original size:30 final size:30
Alignment explanation
Indices: 47382287--47382388 Score: 143
Period size: 30 Copynumber: 3.4 Consensus size: 30
47382277 ATTTAGGATT
*
47382287 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
47382317 TAAATGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
47382347 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
47382377 AAAATGCAATTT
1 AAAATGAAATTT
47382389 TTATTTTTTA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
29 2 0.03
30 62 0.97
ACGTcount: A:0.45, C:0.04, G:0.22, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:47398514 original size:6 final size:6
Alignment explanation
Indices: 47398503--47398531 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
47398493 TGTTAACAAC
47398503 AAATAT AAATAT AAATAT AAATAT AAATA
1 AAATAT AAATAT AAATAT AAATAT AAATA
47398532 AATATTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAATAT
Found at i:47401248 original size:31 final size:32
Alignment explanation
Indices: 47401162--47401224 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
47401152 CATAAAACTT
* * *
47401162 ATAAATTGATTACTTAAATTTAATAACTCATG
1 ATAAATTAATTAATTTAATTTAATAACTCATG
47401194 ATAAATTAATTAATTTAATTTAATAACTCAT
1 ATAAATTAATTAATTTAATTTAATAACTCAT
47401225 ACTGATTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (32 bp):
ATAAATTAATTAATTTAATTTAATAACTCATG
Found at i:47401382 original size:25 final size:26
Alignment explanation
Indices: 47401344--47401392 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
47401334 TTTTTTATTT
*
47401344 TGATTCTCACTTTT-TTTTTTTGAAA
1 TGATTCTCACTTTTCTTTATTTGAAA
**
47401369 TGATTCTCGGTTTTCTTTATTTGA
1 TGATTCTCACTTTTCTTTATTTGA
47401393 TAGAAATTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 12 0.60
26 8 0.40
ACGTcount: A:0.16, C:0.12, G:0.12, T:0.59
Consensus pattern (26 bp):
TGATTCTCACTTTTCTTTATTTGAAA
Found at i:47401463 original size:22 final size:24
Alignment explanation
Indices: 47401420--47401467 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 24
47401410 AATTTTATGA
47401420 TAGATTTACAATAATTACCCTTTT
1 TAGATTTACAATAATTACCCTTTT
*
47401444 TAGATTTAC-AT-ATTATCCTTTT
1 TAGATTTACAATAATTACCCTTTT
47401466 TA
1 TA
47401468 ATAATAGCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.52
23 2 0.09
24 9 0.39
ACGTcount: A:0.31, C:0.15, G:0.04, T:0.50
Consensus pattern (24 bp):
TAGATTTACAATAATTACCCTTTT
Found at i:47401782 original size:20 final size:20
Alignment explanation
Indices: 47401745--47401784 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
47401735 TTATTTACTT
* *
47401745 AAATTAAATTTTATTTATTA
1 AAATTAAATTTAAATTATTA
*
47401765 AAATTATATTTAAATTATTA
1 AAATTAAATTTAAATTATTA
47401785 TTCTCTTACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AAATTAAATTTAAATTATTA
Found at i:47402204 original size:69 final size:67
Alignment explanation
Indices: 47402124--47402257 Score: 225
Period size: 69 Copynumber: 2.0 Consensus size: 67
47402114 AAAACAACTT
*
47402124 TTTTTCACTCTTTTCTTGATTTGT-AAACCTATCACCAAACTTTTCTTTAATTATATATTGCTTA
1 TTTTTCACTCTTTTCTTGATTTGTAAAACCTA-AACCAAACTTTTCTTTAATTATATA-TG-TTA
47402188 TTGAC
63 TTGAC
47402193 TTTTTCACTCTTTTCTTGATTTGTAAAACCTAAACCAAACTTTTCTTTAATTATATATGTTATTG
1 TTTTTCACTCTTTTCTTGATTTGTAAAACCTAAACCAAACTTTTCTTTAATTATATATGTTATTG
47402258 GATTGTCTTC
Statistics
Matches: 63, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
67 6 0.10
68 2 0.03
69 48 0.76
70 7 0.11
ACGTcount: A:0.26, C:0.17, G:0.06, T:0.51
Consensus pattern (67 bp):
TTTTTCACTCTTTTCTTGATTTGTAAAACCTAAACCAAACTTTTCTTTAATTATATATGTTATTG
AC
Found at i:47402969 original size:17 final size:16
Alignment explanation
Indices: 47402937--47402976 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
47402927 TAAGAAAGAA
47402937 TAATTAAAAATTTAAT
1 TAATTAAAAATTTAAT
47402953 TAATT-AAAATTT--T
1 TAATTAAAAATTTAAT
47402966 TAATTAAAAAT
1 TAATTAAAAAT
47402977 CTATTTTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 6 0.26
14 5 0.22
15 7 0.30
16 5 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TAATTAAAAATTTAAT
Found at i:47409008 original size:17 final size:17
Alignment explanation
Indices: 47408968--47409651 Score: 89
Period size: 17 Copynumber: 37.9 Consensus size: 17
47408958 ACACAATTTC
*
47408968 TTTAAAA-ACGAGAA-T
1 TTTAAAACACGAAAATT
*
47408983 TTTAGAAACATGAAAATT
1 TTTA-AAACACGAAAATT
* *
47409001 TTTAAAACACGACAACT
1 TTTAAAACACGAAAATT
* * *
47409018 TTTGAAGCATGAGAAATT
1 TTTAAAACACGA-AAATT
**
47409036 TATTCAAAACAC-AAAAAA
1 T-TT-AAAACACGAAAATT
*
47409054 TTTAAAACACGAACATT
1 TTTAAAACACGAAAATT
* *****
47409071 TTTGAAACAATTTTTATT
1 TTTAAAAC-ACGAAAATT
*
47409089 TTTATTTTTAAACAAGAAAAATT
1 TTTA-----AAACACG-AAAATT
*
47409112 TTTAAAACACGAGAA-T
1 TTTAAAACACGAAAATT
*
47409128 TTTAGAGACACGAAAATT
1 TTTA-AAACACGAAAATT
*
47409146 CTTAAAACACGAAAATT
1 TTTAAAACACGAAAATT
* *
47409163 TTTGAGAACACGACAATT
1 TTT-AAAACACGAAAATT
* * **
47409181 TTAAAATACGCGAATTTT
1 TTTAAA-ACACGAAAATT
***
47409199 TTTGAAAAC-CTGATTTTTT
1 TTT-AAAACAC-GA-AAATT
* * *
47409218 TTTGAAGCGCGAAAATT
1 TTTAAAACACGAAAATT
** * * *
47409235 CGTGAAACATGAGAATT
1 TTTAAAACACGAAAATT
*
47409252 GTTGAAAACACGAAAATT
1 -TTTAAAACACGAAAATT
* *
47409270 TTT-GAACATGAAAATTT
1 TTTAAAACACGAAAA-TT
*
47409287 TTTGAAAACAC-AAATTTTTTT
1 TTT-AAAACACGAAA----ATT
** * * **
47409308 TTTTGATCATGGGAATT
1 TTTAAAACACGAAAATT
* **
47409325 TTGAAAACGTGAAAATT
1 TTTAAAACACGAAAATT
* *
47409342 TTTGAAACACGAAAGTTTTT
1 TTTAAAACACGAAA---ATT
47409362 TTTAAAAAGAACACGAAAATTTT
1 TTT---AA-AACACGAAAA--TT
**
47409385 TTTTGAACACGAGAAAATTT
1 TTTAAAACAC--GAAAA-TT
* *
47409405 TTTGAAAACATGAAAAAT
1 TTT-AAAACACGAAAATT
* * *
47409423 TTTGAAACACCAAAATC
1 TTTAAAACACGAAAATT
* *
47409440 TTGAAAACACGAAGATT
1 TTTAAAACACGAAAATT
**
47409457 TTTGAAAACA--ATTATT
1 TTT-AAAACACGAAAATT
*
47409473 ATTTAAAAAAAACGAAAATT
1 -TTT--AAAACACGAAAATT
* * *
47409493 TATGAAACAC-AAGATTT
1 TTTAAAACACGAA-AATT
*
47409510 TTTAAAAAAAAACACAAAAATT
1 TTT-----AAAACACGAAAATT
*
47409532 TTCAAAACACTG-AAATT
1 TTTAAAACAC-GAAAATT
* **
47409549 TTGAAAACACGAGGATT
1 TTTAAAACACGAAAATT
47409566 TTTAAAACACGCAAAATT
1 TTTAAAACACG-AAAATT
**
47409584 TTGGAAACACGAAAA-T
1 TTTAAAACACGAAAATT
* *
47409600 TTTGAAATACGAAATTATTT
1 TTTAAAACACGAAA--A-TT
* *
47409620 TTTTAAA-ACGGAAATT
1 TTTAAAACACGAAAATT
*
47409636 CTTTGAAACACGAAAA
1 -TTTAAAACACGAAAA
47409652 CTCTTGAAAA
Statistics
Matches: 468, Mismatches: 137, Indels: 125
0.64 0.19 0.17
Matches are distributed among these distances:
15 4 0.01
16 46 0.10
17 188 0.40
18 111 0.24
19 35 0.07
20 29 0.06
21 15 0.03
22 12 0.03
23 19 0.04
24 9 0.02
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.32
Consensus pattern (17 bp):
TTTAAAACACGAAAATT
Found at i:47409144 original size:34 final size:35
Alignment explanation
Indices: 47409106--47409198 Score: 118
Period size: 34 Copynumber: 2.7 Consensus size: 35
47409096 TTAAACAAGA
47409106 AAAATTTTTAAAACACGAGAATTTTAGAG-ACACG
1 AAAATTTTTAAAACACGAGAATTTTAGAGAACACG
* * *
47409140 AAAATTCTTAAAACACGAAAATTTTTGAGAACACG
1 AAAATTTTTAAAACACGAGAATTTTAGAGAACACG
* * *
47409175 ACAA-TTTTAAAATACGCGAATTTT
1 AAAATTTTTAAAACACGAGAATTTT
47409199 TTTGAAAACC
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
34 42 0.84
35 8 0.16
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.29
Consensus pattern (35 bp):
AAAATTTTTAAAACACGAGAATTTTAGAGAACACG
Found at i:47409266 original size:35 final size:35
Alignment explanation
Indices: 47409227--47409297 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 35
47409217 TTTTGAAGCG
*
47409227 CGAAAATTCGTGAAACATGAGAA-TTGTTGAAAACA
1 CGAAAATTCGTG-AACATGAAAATTTGTTGAAAACA
** *
47409262 CGAAAATTTTTGAACATGAAAATTTTTTGAAAACA
1 CGAAAATTCGTGAACATGAAAATTTGTTGAAAACA
47409297 C
1 C
47409298 AAATTTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 9 0.29
35 22 0.71
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.28
Consensus pattern (35 bp):
CGAAAATTCGTGAACATGAAAATTTGTTGAAAACA
Found at i:47409269 original size:18 final size:17
Alignment explanation
Indices: 47409227--47409285 Score: 50
Period size: 18 Copynumber: 3.5 Consensus size: 17
47409217 TTTTGAAGCG
47409227 CGAAAATTCG-TGAAACA
1 CGAAAATT-GTTGAAACA
* *
47409244 TGAGAATTGTTGAAAACA
1 CGAAAATTGTTG-AAACA
*
47409262 CGAAAATTTTTG-AACA
1 CGAAAATTGTTGAAACA
*
47409278 TGAAAATT
1 CGAAAATT
47409286 TTTTGAAAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
16 12 0.35
17 8 0.24
18 14 0.41
ACGTcount: A:0.46, C:0.10, G:0.17, T:0.27
Consensus pattern (17 bp):
CGAAAATTGTTGAAACA
Found at i:47409282 original size:16 final size:16
Alignment explanation
Indices: 47409258--47409288 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47409248 AATTGTTGAA
47409258 AACACGAAAATTTTTG
1 AACACGAAAATTTTTG
*
47409274 AACATGAAAATTTTT
1 AACACGAAAATTTTT
47409289 TGAAAACACA
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:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (16 bp):
AACACGAAAATTTTTG
Found at i:47409408 original size:19 final size:19
Alignment explanation
Indices: 47409370--47409410 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
47409360 TTTTTAAAAA
*
47409370 GAACACGAAAATTTTTTTT
1 GAACACGAAAATATTTTTT
47409389 GAACACGAGAAA-ATTTTTT
1 GAACACGA-AAATATTTTTT
47409408 GAA
1 GAA
47409411 AACATGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (19 bp):
GAACACGAAAATATTTTTT
Found at i:47409414 original size:21 final size:21
Alignment explanation
Indices: 47409376--47409425 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
47409366 AAAAGAACAC
***
47409376 GAAAATTTTTTTTGAACACGA
1 GAAAATTTTTTGAAAACACGA
*
47409397 GAAAATTTTTTGAAAACATGA
1 GAAAATTTTTTGAAAACACGA
47409418 -AAAATTTT
1 GAAAATTTT
47409426 GAAACACCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (21 bp):
GAAAATTTTTTGAAAACACGA
Found at i:47409425 original size:18 final size:17
Alignment explanation
Indices: 47409385--47409466 Score: 58
Period size: 18 Copynumber: 4.6 Consensus size: 17
47409375 CGAAAATTTT
* *
47409385 TTTTGAACACGAGAAAATT
1 TTTTGAAAAC-AGAAAA-A
47409404 TTTTGAAAACATGAAAAA
1 TTTTGAAAACA-GAAAAA
**
47409422 TTTTG-AAACACCAAAA
1 TTTTGAAAACAGAAAAA
* * *
47409438 TCTTGAAAACACGAAGAT
1 TTTTGAAAACA-GAAAAA
47409456 TTTTGAAAACA
1 TTTTGAAAACA
47409467 ATTATTATTT
Statistics
Matches: 50, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
16 8 0.16
17 10 0.20
18 18 0.36
19 14 0.28
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.28
Consensus pattern (17 bp):
TTTTGAAAACAGAAAAA
Found at i:47409517 original size:35 final size:36
Alignment explanation
Indices: 47409443--47409520 Score: 95
Period size: 36 Copynumber: 2.2 Consensus size: 36
47409433 CAAAATCTTG
* * * *
47409443 AAAACACGAAGATTTTTGAAAACAATTATTATTTAA
1 AAAAAACGAAAATTTATGAAAACAATGATTATTTAA
*
47409479 AAAAAACGAAAATTTATGAAACACAA-GATTTTTTAA
1 AAAAAACGAAAATTTATGAAA-ACAATGATTATTTAA
47409515 AAAAAA
1 AAAAAA
47409521 ACACAAAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
36 32 0.89
37 4 0.11
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (36 bp):
AAAAAACGAAAATTTATGAAAACAATGATTATTTAA
Found at i:47409533 original size:22 final size:22
Alignment explanation
Indices: 47409497--47409538 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
47409487 AAAATTTATG
* * *
47409497 AAACACAAGATTTTTTAAAAAA
1 AAACACAAAAATTTTCAAAAAA
47409519 AAACACAAAAATTTTCAAAA
1 AAACACAAAAATTTTCAAAA
47409539 CACTGAAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.62, C:0.12, G:0.02, T:0.24
Consensus pattern (22 bp):
AAACACAAAAATTTTCAAAAAA
Found at i:47409584 original size:18 final size:17
Alignment explanation
Indices: 47409518--47409606 Score: 99
Period size: 17 Copynumber: 5.2 Consensus size: 17
47409508 TTTTTAAAAA
* *
47409518 AAAACACAAAAATTTTC
1 AAAACACGAAAATTTTG
47409535 AAAACACTG-AAATTTTG
1 AAAACAC-GAAAATTTTG
** *
47409552 AAAACACGAGGATTTTT
1 AAAACACGAAAATTTTG
47409569 AAAACACGCAAAATTTTG
1 AAAACACG-AAAATTTTG
*
47409587 GAAACACGAAAATTTTG
1 AAAACACGAAAATTTTG
47409604 AAA
1 AAA
47409607 TACGAAATTA
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
16 1 0.02
17 45 0.76
18 13 0.22
ACGTcount: A:0.51, C:0.13, G:0.11, T:0.25
Consensus pattern (17 bp):
AAAACACGAAAATTTTG
Found at i:47409602 original size:35 final size:34
Alignment explanation
Indices: 47409518--47409602 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 34
47409508 TTTTTAAAAA
*
47409518 AAAACACAAAAATTTTCAAAACACTGAAATTTTG
1 AAAACACGAAAATTTTCAAAACACTGAAATTTTG
** *
47409552 AAAACACGAGGATTTTTAAAACAC-GCAAAATTTTG
1 AAAACACGAAAATTTTCAAAACACTG--AAATTTTG
*
47409587 GAAACACGAAAATTTT
1 AAAACACGAAAATTTT
47409603 GAAATACGAA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
33 1 0.02
34 20 0.48
35 21 0.50
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.26
Consensus pattern (34 bp):
AAAACACGAAAATTTTCAAAACACTGAAATTTTG
Found at i:47410211 original size:8 final size:8
Alignment explanation
Indices: 47410188--47410259 Score: 87
Period size: 8 Copynumber: 9.4 Consensus size: 8
47410178 AATTGAACCC
*
47410188 CTTTTCTT
1 CTTTTTTT
*
47410196 CCTTTTTT
1 CTTTTTTT
47410204 CTTTTTTT
1 CTTTTTTT
47410212 C-TTTTTT
1 CTTTTTTT
47410219 C-TTTTTT
1 CTTTTTTT
47410226 CTTTTTTT
1 CTTTTTTT
47410234 C-TTTTTT
1 CTTTTTTT
*
47410241 CCTTTTTT
1 CTTTTTTT
*
47410249 CTTCTTTT
1 CTTTTTTT
47410257 CTT
1 CTT
47410260 CCTTTTTTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
7 21 0.37
8 36 0.63
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (8 bp):
CTTTTTTT
Done.