Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 277 of 320
Found at i:89281790 original size:58 final size:58
Alignment explanation
Indices: 89281720--89281835 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
89281710 TTCACATGTA
89281720 AATTGTTTTAAATCCTTTTATTATTGTAAATCTTTGGATTATTATATATTTTAAGGTT
1 AATTGTTTTAAATCCTTTTATTATTGTAAATCTTTGGATTATTATATATTTTAAGGTT
89281778 AATTGTTTTAAATCCTTTTATTATTGTAAATCTTTGGATTATTATATATTTTAAGGTT
1 AATTGTTTTAAATCCTTTTATTATTGTAAATCTTTGGATTATTATATATTTTAAGGTT
89281836 TCATATATTA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.29, C:0.05, G:0.10, T:0.55
Consensus pattern (58 bp):
AATTGTTTTAAATCCTTTTATTATTGTAAATCTTTGGATTATTATATATTTTAAGGTT
Found at i:89301703 original size:56 final size:56
Alignment explanation
Indices: 89301617--89301731 Score: 221
Period size: 56 Copynumber: 2.1 Consensus size: 56
89301607 AAATTCAATC
89301617 ACCACCATATTTTGCATGTCAACAAGGACATGTATTCCCTCAACTGGACGAGCATA
1 ACCACCATATTTTGCATGTCAACAAGGACATGTATTCCCTCAACTGGACGAGCATA
*
89301673 ACCACCATATTTTGCATGTCAACAAGGACATGTATTCCCTCAACTGGATGAGCATA
1 ACCACCATATTTTGCATGTCAACAAGGACATGTATTCCCTCAACTGGACGAGCATA
89301729 ACC
1 ACC
89301732 TATATTAAAA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (56 bp):
ACCACCATATTTTGCATGTCAACAAGGACATGTATTCCCTCAACTGGACGAGCATA
Found at i:89303680 original size:27 final size:28
Alignment explanation
Indices: 89303646--89303704 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
89303636 CTTAGAATTA
*
89303646 TTATTGTAATA-TAAC-TAT-ACTACTTT
1 TTATTGTAAAACTAACGTATGA-TACTTT
89303672 TTATATGTAAAACTAACGTATGATACTTT
1 TTAT-TGTAAAACTAACGTATGATACTTT
89303701 TTAT
1 TTAT
89303705 GTTTGGTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 4 0.14
27 6 0.21
28 4 0.14
29 13 0.46
30 1 0.04
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.47
Consensus pattern (28 bp):
TTATTGTAAAACTAACGTATGATACTTT
Found at i:89305702 original size:21 final size:21
Alignment explanation
Indices: 89305677--89305732 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
89305667 CACCGTTGTT
*
89305677 TCTAATCTCACCGCTACTGTA
1 TCTAATCTCACCGCTACAGTA
89305698 TCTAATCTCACCGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
*
89305719 ACTAATCTCACCGC
1 TCTAATCTCACCGC
89305733 CACCGTTGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.27, C:0.36, G:0.09, T:0.29
Consensus pattern (21 bp):
TCTAATCTCACCGCTACAGTA
Found at i:89305872 original size:21 final size:21
Alignment explanation
Indices: 89305846--89305901 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
89305836 AACAGCGGTG
* **
89305846 GCGGTGAGATTAGTTATTGTA
1 GCGGTGAGATTAGATACAGTA
89305867 GCGGTGAGATTAGATACAGTA
1 GCGGTGAGATTAGATACAGTA
89305888 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
89305902 AACAACGGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.29, C:0.07, G:0.36, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACAGTA
Found at i:89307919 original size:32 final size:32
Alignment explanation
Indices: 89307880--89308039 Score: 239
Period size: 32 Copynumber: 5.0 Consensus size: 32
89307870 CATAAAAAAT
*
89307880 ATCATACATTAGGTTTACATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
*
89307912 ATCATACATTAGTTTTGCATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
* * *
89307944 ATCATACATTAGGTTCACATATAAAAAAGTAT
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
* *
89307976 ATCATACATTAGTTTTGCATATGAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
* *
89308008 ATCATATATTAGTTTTATATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
89308040 CATAGTTATA
Statistics
Matches: 113, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 113 1.00
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.34
Consensus pattern (32 bp):
ATCATACATTAGTTTTACATATAAAAAAGTAG
Found at i:89307953 original size:64 final size:64
Alignment explanation
Indices: 89307880--89308039 Score: 266
Period size: 64 Copynumber: 2.5 Consensus size: 64
89307870 CATAAAAAAT
89307880 ATCATACATTAGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGTAG
1 ATCATACATTAGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGTAG
* * *
89307944 ATCATACATTAGGTTCACATATAAAAAAGTATATCATACATTAGTTTTGCATATGAAAAAGTAG
1 ATCATACATTAGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGTAG
* * *
89308008 ATCATATATTAGTTTTATATATAAAAAAGTAG
1 ATCATACATTAGGTTTACATATAAAAAAGTAG
89308040 CATAGTTATA
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 88 1.00
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.34
Consensus pattern (64 bp):
ATCATACATTAGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGTAG
Found at i:89313363 original size:18 final size:18
Alignment explanation
Indices: 89313340--89313377 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
89313330 CCGGATTCCC
*
89313340 CTCTCTTCTCTCTCCCTT
1 CTCTCTTCCCTCTCCCTT
*
89313358 CTCTCTTCCCTCTCTCTT
1 CTCTCTTCCCTCTCCCTT
89313376 CT
1 CT
89313378 TTTTTTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (18 bp):
CTCTCTTCCCTCTCCCTT
Found at i:89313375 original size:11 final size:12
Alignment explanation
Indices: 89313344--89313376 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
89313334 ATTCCCCTCT
89313344 CTTCTCTC-TCC
1 CTTCTCTCTTCC
89313355 CTTCTCTCTTCC
1 CTTCTCTCTTCC
89313367 C-TCTCTCTTC
1 CTTCTCTCTTC
89313377 TTTTTTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (12 bp):
CTTCTCTCTTCC
Found at i:89313863 original size:3 final size:3
Alignment explanation
Indices: 89313839--89313906 Score: 57
Period size: 3 Copynumber: 22.3 Consensus size: 3
89313829 AATATCCTTG
* * * *
89313839 TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA CTA TTA TTA TTA TGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* *
89313887 TTA GTA TATA TTT TTA TTA T
1 TTA TTA T-TA TTA TTA TTA T
89313907 GTACGTGTAT
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
2 2 0.04
3 42 0.84
4 6 0.12
ACGTcount: A:0.31, C:0.01, G:0.06, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:89313916 original size:23 final size:23
Alignment explanation
Indices: 89313846--89313917 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 23
89313836 TTGTTATTTT
* *
89313846 TATATTATTAGTAT-TATTAGTA
1 TATATTATTATTATGTAGTAGTA
*
89313868 TTACTATTATTATTATGTATTAGTA
1 -TA-TATTATTATTATGTAGTAGTA
*
89313893 TATATTTTTATTATGTACGT-GTA
1 TATATTATTATTATGTA-GTAGTA
89313916 TA
1 TA
89313918 CATATATATA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
23 21 0.49
24 14 0.33
25 8 0.19
ACGTcount: A:0.32, C:0.03, G:0.10, T:0.56
Consensus pattern (23 bp):
TATATTATTATTATGTAGTAGTA
Found at i:89314317 original size:22 final size:23
Alignment explanation
Indices: 89314289--89314332 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
89314279 CTTTTATATA
89314289 TATTATCA-TGTATATAT-TTTAG
1 TATTATCAGT-TATATATCTTTAG
89314311 TATTATCAGTTATATATCTTTA
1 TATTATCAGTTATATATCTTTA
89314333 TACTATATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.32, C:0.07, G:0.07, T:0.55
Consensus pattern (23 bp):
TATTATCAGTTATATATCTTTAG
Found at i:89321025 original size:27 final size:27
Alignment explanation
Indices: 89320995--89321172 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
89320985 ATATCGAGTC
* *
89320995 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
89321022 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
89321049 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
89321077 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
89321104 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
89321131 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
89321158 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
89321173 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:89321134 original size:82 final size:81
Alignment explanation
Indices: 89321016--89321171 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
89321006 TGCTATATAA
* *
89321016 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
89321081 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
89321098 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
89321162 CACTTAGTGC
65 CACTTAGTGC
89321172 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 19 0.29
82 47 0.71
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:89329144 original size:27 final size:27
Alignment explanation
Indices: 89329113--89329208 Score: 122
Period size: 27 Copynumber: 3.6 Consensus size: 27
89329103 AGTCTTAGAC
** *
89329113 TCGCACACTTAGTGCCGCATGGTCAAT
1 TCGCACACTTAGTGCAACATAGTCAAT
* * *
89329140 TCGCACACTTAGTGCATCATATTCATT
1 TCGCACACTTAGTGCAACATAGTCAAT
89329167 TCGCACACTTAGTGCAACATAGTCGAA-
1 TCGCACACTTAGTGCAACATAGTC-AAT
89329194 TCGCACACTTAGTGC
1 TCGCACACTTAGTGC
89329209 TGTACAATTT
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 59 0.98
28 1 0.02
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (27 bp):
TCGCACACTTAGTGCAACATAGTCAAT
Found at i:89342361 original size:30 final size:30
Alignment explanation
Indices: 89342327--89342423 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
89342317 TAAACTAAAA
89342327 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
89342357 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
89342387 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
89342417 TGAGCTA
1 TGAGCTA
89342424 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:89344607 original size:30 final size:30
Alignment explanation
Indices: 89344536--89344618 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
89344526 CTTTTGTTTC
* *
89344536 AATTTCTTTTTCAGCTTCTTTTTCACTCTCA
1 AATTTCTTTTTC-GTTTCTTTTTCAATCTCA
89344567 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTCGTT-TCTTTTTCAATCTCA
* *
89344596 ATTTTCTTTTTCATTTTCTTTTT
1 AATTTCTTTTTC-GTTTCTTTTT
89344619 GCTTTTCAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
29 7 0.16
30 30 0.67
31 8 0.18
ACGTcount: A:0.13, C:0.22, G:0.02, T:0.63
Consensus pattern (30 bp):
AATTTCTTTTTCGTTTCTTTTTCAATCTCA
Found at i:89344618 original size:18 final size:18
Alignment explanation
Indices: 89344569--89344624 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
89344559 CACTCTCAAA
* *
89344569 TTTC-TTTTCGTTCTCTT
1 TTTCATTTTCATTTTCTT
* *
89344586 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
89344604 TTTCATTTTCTTTTTGCTT
1 TTTCATTTTCATTTT-CTT
89344623 TT
1 TT
89344625 CAAAGGCTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.07, C:0.20, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:89344625 original size:12 final size:12
Alignment explanation
Indices: 89344594--89344618 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
89344584 TTTTTCAATC
89344594 TCATTTTCTTTT
1 TCATTTTCTTTT
89344606 TCATTTTCTTTT
1 TCATTTTCTTTT
89344618 T
1 T
89344619 GCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:89344697 original size:5 final size:5
Alignment explanation
Indices: 89344687--89344743 Score: 53
Period size: 5 Copynumber: 11.0 Consensus size: 5
89344677 CTCTTGCCTC
* * *
89344687 TCTTT TCTTTT TATTT TGTTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TC-TTT TCTTT TCTTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
89344734 TCTTT TCTTT
1 TCTTT TCTTT
89344744 GTTTTCTCTT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
4 3 0.07
5 30 0.70
6 6 0.14
7 4 0.09
ACGTcount: A:0.02, C:0.16, G:0.04, T:0.79
Consensus pattern (5 bp):
TCTTT
Found at i:89344719 original size:25 final size:25
Alignment explanation
Indices: 89344691--89344739 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
89344681 TGCCTCTCTT
*
89344691 TTCTTTT-TATTTTGTTTTCTTTTTC
1 TTCTTTTCT-TTTTCTTTTCTTTTTC
89344716 TTCTTTTGCTTTTTCTTTTCTTTT
1 TTCTTTT-CTTTTTCTTTTCTTTT
89344740 CTTTGTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.33
26 13 0.62
27 1 0.05
ACGTcount: A:0.02, C:0.14, G:0.04, T:0.80
Consensus pattern (25 bp):
TTCTTTTCTTTTTCTTTTCTTTTTC
Found at i:89344744 original size:21 final size:20
Alignment explanation
Indices: 89344700--89344754 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 20
89344690 TTTCTTTTTA
89344700 TTTTG-TTTTCTTTTTCTTC
1 TTTTGTTTTTCTTTTTCTTC
*
89344719 TTTTGCTTTTTC-TTTTCTTT
1 TTTTG-TTTTTCTTTTTCTTC
89344739 TCTTTGTTTTCTCTTT
1 T-TTTGTTTT-TCTTT
89344755 ACAAAAATGT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
19 5 0.17
20 12 0.40
21 11 0.37
22 2 0.07
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.78
Consensus pattern (20 bp):
TTTTGTTTTTCTTTTTCTTC
Found at i:89347347 original size:30 final size:30
Alignment explanation
Indices: 89347313--89347409 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
89347303 TAAACTAAAA
89347313 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
89347343 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
89347373 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
89347403 TGAGCTA
1 TGAGCTA
89347410 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:89351355 original size:12 final size:12
Alignment explanation
Indices: 89351338--89351372 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
89351328 GAGAGCAAAA
89351338 AAAGAAAAGAAT
1 AAAGAAAAGAAT
*
89351350 AAAGAAAAGAGT
1 AAAGAAAAGAAT
*
89351362 GAAGAAAAGAA
1 AAAGAAAAGAA
89351373 GAAAAACAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.71, C:0.00, G:0.23, T:0.06
Consensus pattern (12 bp):
AAAGAAAAGAAT
Found at i:89351423 original size:24 final size:25
Alignment explanation
Indices: 89351396--89351449 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 25
89351386 ATGAGTGATA
*
89351396 AAAAAAGAGA-GAGTGATTCAAAA-G
1 AAAAAAGAAACGAGTGA-TCAAAATG
*
89351420 -AAAAAGAAACGAGTGATGAAAATG
1 AAAAAAGAAACGAGTGATCAAAATG
89351444 AAAAAA
1 AAAAAA
89351450 AGAATTTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 13 0.52
24 7 0.28
25 5 0.20
ACGTcount: A:0.63, C:0.04, G:0.22, T:0.11
Consensus pattern (25 bp):
AAAAAAGAAACGAGTGATCAAAATG
Found at i:89373249 original size:74 final size:74
Alignment explanation
Indices: 89373153--89373355 Score: 259
Period size: 74 Copynumber: 2.7 Consensus size: 74
89373143 TGTTCCAAAG
** * * * *
89373153 ATCAACTCATAGGGCGAAAGGTGAGTTGAGCCTCAGGACATGCTAAGGTATTTTCAAATTC-TT-
1 ATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTC-AA-TCGTTG
89373216 TTT-TCAAAAAA
64 TTTGTC-AAAAA
* * * *
89373227 ATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGGCACGGTGAGGTATTTTCAATCGTTGTT
1 ATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATCGTTGTT
89373292 TGTCAAAAA
66 TGTCAAAAA
*
89373301 ATCAACTCATACTGCCAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTC
1 ATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTC
89373356 GATTTCCGCT
Statistics
Matches: 112, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
72 2 0.02
73 4 0.04
74 104 0.93
75 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (74 bp):
ATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATCGTTGTT
TGTCAAAAA
Found at i:89373536 original size:14 final size:14
Alignment explanation
Indices: 89373517--89373545 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
89373507 AGCTGAGGTC
89373517 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
89373531 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
89373545 T
1 T
89373546 CGTCAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:89373568 original size:164 final size:162
Alignment explanation
Indices: 89373219--89373953 Score: 527
Period size: 164 Copynumber: 4.5 Consensus size: 162
89373209 AATTCTTTTT
* * *
89373219 TCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGGCACGGTGAGGTATTTTCAA
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGCACGCTGAGGTATTTTCAA
*
89373284 TCGT-TGTTTGTCAAAAAATCAACTCATACTGCCAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
65 T-TTCTGTTTGTCAAAAAATCAACTCATACTGCCAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
* *
89373348 GTATTTTCGATTTCCGCTTTCCAATTTCTGCTCT
129 GTATTTTCAATTTCCGCTTTCCAATTTCTGCTCG
* *
89373382 TCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAATTTC
1 TC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACGCTGAGGTATTTTC
* * *
89373447 CATTTCTGTTTGTC-AAAAATCAACTCATA-TCGCGAGAGGTGAGTTGAGCCTC-GGCTCACAAG
63 AATTTCTGTTTGTCAAAAAATCAACTCATACT-GCCAGAGGTGAGTTGAGCCTCAGG-GCAC--G
* * * * *
89373509 CTGAGGTCTTTTCAATTTCTGTTTTTCAATTTCTGTTCG
124 CTGAGGTATTTTCAATTTCCGCTTTCCAATTTCTGCTCG
* *
89373548 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCATGCTGAGGTATTTTCGA
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGCACGCTGAGGTATTTTCAA
* *
89373613 TTTCTGCTTTCCAATTTCTGCTCTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
65 TTTCTG---------TT-TG----TC--AAAAAATCAACTCATACTGCCAGAGGTGAGTTGAGCC
* * * * *
89373678 TTAAGACACGCTGAGG-----TC----T----TTT-CAATTTCTGTTTG
114 TCAGGGCACGCTGAGGTATTTTCAATTTCCGCTTTCCAATTTCTGCTCG
* * *
89373713 TC--AAAAATCAACTCATATCGCAAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTCTTTT
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--CAC--GCTGAGGTATTTT
* * *
89373775 CAATTTCTGTTCGTC---AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GAGGCACGCT
62 CAATTTCTGTTTGTCAAAAAATCAACTCATACTGCCAGAGGTGAGTTGAGCCTCAG-GGCACGCT
* **** * * * **
89373836 GAGGTATTCTCAATTAATGTTTTTTTCAATTTATACTTT
126 GAGGTATTTTCAATT--TCCGCTTTCCAATTTCTGCTCG
* * * *
89373875 TC--AAGAATCAACTCATATTACGAGAGGTGAGTTGAACCTCAGGTCACATGCCGAGGTATTTTC
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CAC--GCTGAGGTATTTTC
* *
89373938 AAATT-TGTTTGGCAAA
63 AATTTCTGTTTGTCAAA
89373954 TTCTGTTTTC
Statistics
Matches: 472, Mismatches: 47, Indels: 105
0.76 0.08 0.17
Matches are distributed among these distances:
146 45 0.10
151 4 0.01
155 1 0.00
156 2 0.00
157 1 0.00
161 11 0.02
162 66 0.14
163 45 0.10
164 102 0.22
165 101 0.21
166 38 0.08
170 1 0.00
173 2 0.00
174 4 0.01
178 2 0.00
179 7 0.01
181 38 0.08
182 2 0.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.32
Consensus pattern (162 bp):
TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACGCTGAGGTATTTTCAAT
TTCTGTTTGTCAAAAAATCAACTCATACTGCCAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGT
ATTTTCAATTTCCGCTTTCCAATTTCTGCTCG
Found at i:89373616 original size:89 final size:89
Alignment explanation
Indices: 89373443--89373716 Score: 349
Period size: 90 Copynumber: 3.1 Consensus size: 89
89373433 GTTGAGGTAA
* * *
89373443 TTTCCATTTCTGTTTGTC--AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTC--GGCTC
1 TTTCAATTTCTGTTCGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG---
89373504 ACAAGCTGAGGTCTTTTCAATTTCTGTT
63 -CAAGCTGAGGTCTTTTCAATTTCTGTT
*
89373532 TTTCAATTTCTGTTCGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCAT
1 TTTCAATTTCTGTTCGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCAA
* * *
89373597 GCTGAGGTATTTTCGATTTCTGCT
66 GCTGAGGTCTTTTCAATTTCTGTT
* * * * *
89373621 TTCCAATTTCTGCTCTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGACA
1 TTTCAATTTCTGTTCGTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCA
*
89373686 CGCTGAGGTCTTTTCAATTTCTGTT
65 AGCTGAGGTCTTTTCAATTTCTGTT
*
89373711 TGTCAA
1 TTTCAA
89373717 AAATCAACTC
Statistics
Matches: 162, Mismatches: 18, Indels: 9
0.86 0.10 0.05
Matches are distributed among these distances:
89 54 0.33
90 69 0.43
91 37 0.23
93 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.35
Consensus pattern (89 bp):
TTTCAATTTCTGTTCGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCAA
GCTGAGGTCTTTTCAATTTCTGTT
Found at i:89373726 original size:254 final size:254
Alignment explanation
Indices: 89373288--89373785 Score: 854
Period size: 254 Copynumber: 2.0 Consensus size: 254
89373278 TTTCAATCGT
* *
89373288 TGTTTGTCAAAAAATCAACTCATACTGCCAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATT
1 TGTTCGTCAAAAAATCAACTCATACTGCCAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTATT
89373353 TTCGATTTCCGCTTTCCAATTTCTGCTCTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGT
66 TTCGATTTCCGCTTTCCAATTTCTGCTCTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGT
* * * *
89373418 TGAGCCTCAGGACACGTTGAGGTAATTTCCATTTCTGTTTGTCAAAAATCAACTCATATCGCGAG
131 TGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATCGCAAG
89373483 AGGTGAGTTGAGCCTCGGCTCACAAGCTGAGGTCTTTTCAATTTCTGTTTTTCAATTTC
196 AGGTGAGTTGAGCCTCGGCTCACAAGCTGAGGTCTTTTCAATTTCTGTTTTTCAATTTC
* * *
89373542 TGTTCGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCATGCTGAGGTAT
1 TGTTCGTC-AAAAAATCAACTCATACTGCCAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTAT
*
89373607 TTTCGATTTCTGCTTTCCAATTTCTGCTCTTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAG
65 TTTCGATTTCCGCTTTCCAATTTCTGCTCTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAG
* **
89373671 TTGAGCCTTAAGACACGCTGAGGTCTTTTCAATTTCTGTTTGTCAAAAATCAACTCATATCGCAA
130 TTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATCGCAA
*
89373736 GAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATTTCTGTT
195 GAGGTGAGTTGAGCCTCGGCTCACAAGCTGAGGTCTTTTCAATTTCTGTT
89373786 CGTCAAATCA
Statistics
Matches: 229, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
254 146 0.64
255 83 0.36
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (254 bp):
TGTTCGTCAAAAAATCAACTCATACTGCCAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTATT
TTCGATTTCCGCTTTCCAATTTCTGCTCTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGT
TGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATCGCAAG
AGGTGAGTTGAGCCTCGGCTCACAAGCTGAGGTCTTTTCAATTTCTGTTTTTCAATTTC
Found at i:89373782 original size:75 final size:72
Alignment explanation
Indices: 89373642--89373850 Score: 278
Period size: 73 Copynumber: 2.9 Consensus size: 72
89373632 GCTCTTCAAA
* **
89373642 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGACACGCTGAGGTCTTTTCAATTTC
1 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCC-TCGGACACGCTGAGGTCTTTTCAATTTC
*
89373707 TGTTTGTC
65 TGTTCGTC
* *
89373715 AAAAATCAACTCATATCGCAAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATT
1 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGG---ACACGCTGAGGTCTTTTCAATT
89373780 TCTGTTCGTC
63 TCTGTTCGTC
* * *
89373790 --AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGAGGCACGCTGAGGTATTCTCAATT
1 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCG-GACACGCTGAGGTCTTTTCAATT
89373851 AATGTTTTTT
Statistics
Matches: 121, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
71 18 0.15
72 2 0.02
73 70 0.58
74 1 0.01
75 30 0.25
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.30
Consensus pattern (72 bp):
AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTCTTTTCAATTTCT
GTTCGTC
Found at i:89373821 original size:327 final size:318
Alignment explanation
Indices: 89373388--89374001 Score: 738
Period size: 327 Copynumber: 1.9 Consensus size: 318
89373378 CTCTTCAAAA
* * * *
89373388 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAATTTCCATTTC
1 AAAAATCAACTCATATCGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* * * *
89373453 TGTTTGTCAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCG-GCTCACAAGCTGAGGTC
66 TGTTCGTC-AAAATCAACTCATATCGCAAGAGGTGAGTTGAGCCTCGAG-GCAC--GCTGAGGTA
* * * *
89373517 TTTTCAATT-TCTGTTTTTCAATTTCT-GTTCGTCAAAAAAATCAACTCATATTGCGAGAGGTGA
127 TTCTCAATTATCTGTTTTTCAATTTATACTT-GTC--AAAAATCAACTCATATTACGAGAGGTGA
* * * * *
89373580 GTTGAGCCTCAAGG-CATGCTGAGGTATTTTCGATTTCTGCTTT-CCAATTTCTGCTCTTCAAAA
189 GTTGAACCTC-AGGACATGCCGAGGTATTTTCAAATT-TG-TTTGCCAAATTCTG-TCTTC---A
*
89373643 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGACACGCTGAGGTCTTTTCAATTTCT
247 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTAAGACACGCTGAGGTCTTTTCAATTTCT
89373708 GTTTGTC
312 GTTTGTC
* **
89373715 AAAAATCAACTCATATCGCAAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTCTTTTCAAT
1 AAAAATCAACTCATATCGCAAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAAT
*
89373779 TTCTGTTCGTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGAGGCACGCTGAGGTAT
63 TTCTGTTCGTCAAAATCAACTCATATCGCAAGAGGTGAGTTGAGCCTCGAGGCACGCTGAGGTAT
* * * *
89373843 TCTCAATTAATGTTTTTTTCAATTTATACTTTTCAAGAATCAACTCATATTACGAGAGGTGAGTT
128 TCTCAATT-ATCTGTTTTTCAATTTATACTTGTCAAAAATCAACTCATATTACGAGAGGTGAGTT
* *
89373908 GAACCTCAGGTCACATGCCGAGGTATTTTCAAATTTGTTTGGCAAATTCTGTTTTCAAAAATCAA
192 GAACCTCAGG--ACATGCCGAGGTATTTTCAAATTTGTTTGCCAAATTCTGTCTTCAAAAATCAA
*
89373973 CTCATATTGTGAGAAGTGAGTTGAGCCTT
255 CTCATATTGCGAGAAGTGAGTTGAGCCTT
89374002 TGCTCACGTG
Statistics
Matches: 247, Mismatches: 29, Indels: 27
0.82 0.10 0.09
Matches are distributed among these distances:
322 36 0.15
324 3 0.01
325 58 0.23
326 12 0.05
327 109 0.44
328 3 0.01
329 26 0.11
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.33
Consensus pattern (318 bp):
AAAAATCAACTCATATCGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
TGTTCGTCAAAATCAACTCATATCGCAAGAGGTGAGTTGAGCCTCGAGGCACGCTGAGGTATTCT
CAATTATCTGTTTTTCAATTTATACTTGTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAAC
CTCAGGACATGCCGAGGTATTTTCAAATTTGTTTGCCAAATTCTGTCTTCAAAAATCAACTCATA
TTGCGAGAAGTGAGTTGAGCCTTAAGACACGCTGAGGTCTTTTCAATTTCTGTTTGTC
Found at i:89374516 original size:53 final size:53
Alignment explanation
Indices: 89374436--89374546 Score: 204
Period size: 53 Copynumber: 2.1 Consensus size: 53
89374426 GCAAGACCAG
*
89374436 GCAAAATTGGCCTCTCTTTATGTCTTTGCTCTATTCCCGTTATACGATAATGA
1 GCAAAATTGACCTCTCTTTATGTCTTTGCTCTATTCCCGTTATACGATAATGA
*
89374489 GCAAAATTGACCTCTCTTTATGTCTTTGCTCTATTCTCGTTATACGATAATGA
1 GCAAAATTGACCTCTCTTTATGTCTTTGCTCTATTCCCGTTATACGATAATGA
89374542 GCAAA
1 GCAAA
89374547 GAGGGGCAGC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (53 bp):
GCAAAATTGACCTCTCTTTATGTCTTTGCTCTATTCCCGTTATACGATAATGA
Found at i:89375809 original size:3 final size:3
Alignment explanation
Indices: 89375785--89375858 Score: 69
Period size: 3 Copynumber: 24.3 Consensus size: 3
89375775 AATATCCTTG
* * * *
89375785 TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
89375832 TTA TGTA TTA GTA TATA TTT TTA TTA T
1 TTA T-TA TTA TTA T-TA TTA TTA TTA T
89375859 GTACGTGTAT
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
2 2 0.04
3 48 0.86
4 6 0.11
ACGTcount: A:0.31, C:0.01, G:0.05, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:89375868 original size:23 final size:23
Alignment explanation
Indices: 89375803--89375869 Score: 59
Period size: 23 Copynumber: 3.0 Consensus size: 23
89375793 ATATTATTAG
* * *
89375803 TATTATTAGTAT-TACTATTAT-
1 TATTATTATTATGTAGTAGTATA
*
89375824 TATTATTATTATGTATTAGTATA
1 TATTATTATTATGTAGTAGTATA
*
89375847 TATTTTTATTATGTACGT-GTATA
1 TATTATTATTATGTA-GTAGTATA
89375870 CATATATATA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
21 11 0.29
22 7 0.18
23 19 0.50
24 1 0.03
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.57
Consensus pattern (23 bp):
TATTATTATTATGTAGTAGTATA
Found at i:89375971 original size:3 final size:3
Alignment explanation
Indices: 89375958--89375987 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
89375948 TATTCCAATG
*
89375958 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
89375988 GTTTATGCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:89376275 original size:22 final size:23
Alignment explanation
Indices: 89376247--89376290 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
89376237 CTTTTATATA
89376247 TATTATCA-TGTATATAT-TTTAG
1 TATTATCAGT-TATATATCTTTAG
89376269 TATTATCAGTTATATATCTTTA
1 TATTATCAGTTATATATCTTTA
89376291 TACTATATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.32, C:0.07, G:0.07, T:0.55
Consensus pattern (23 bp):
TATTATCAGTTATATATCTTTAG
Found at i:89378579 original size:19 final size:19
Alignment explanation
Indices: 89378555--89378593 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
89378545 TCATTTACAT
89378555 ACATTTGGGTGCCTACCAA
1 ACATTTGGGTGCCTACCAA
*
89378574 ACATTTGGGTGCCTATCAA
1 ACATTTGGGTGCCTACCAA
89378593 A
1 A
89378594 GGTTGAACCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (19 bp):
ACATTTGGGTGCCTACCAA
Found at i:89378687 original size:25 final size:25
Alignment explanation
Indices: 89378656--89378713 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
89378646 TACAAACTGT
* *
89378656 GAATATGGTCGCAAGAAGAACCAGA
1 GAATATGGTAGCAAGAAGAAACAGA
*
89378681 GATTATGGTAGCAAGAAGAAACAGA
1 GAATATGGTAGCAAGAAGAAACAGA
89378706 GAATATGG
1 GAATATGG
89378714 GAATGAAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.45, C:0.10, G:0.29, T:0.16
Consensus pattern (25 bp):
GAATATGGTAGCAAGAAGAAACAGA
Found at i:89379393 original size:18 final size:18
Alignment explanation
Indices: 89379370--89379404 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
89379360 ATCGAAGGGT
89379370 AAGGTTAAACCCACAACC
1 AAGGTTAAACCCACAACC
89379388 AAGGTTAAACCCACAAC
1 AAGGTTAAACCCACAAC
89379405 TGACTGCCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.31, G:0.11, T:0.11
Consensus pattern (18 bp):
AAGGTTAAACCCACAACC
Found at i:89383422 original size:13 final size:14
Alignment explanation
Indices: 89383398--89383430 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
89383388 ATGGGGATAG
*
89383398 GATTCTGTATATCT
1 GATTCTGCATATCT
89383412 G-TTCTGCATATCT
1 GATTCTGCATATCT
89383425 GATTCT
1 GATTCT
89383431 ATTATCTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.48
Consensus pattern (14 bp):
GATTCTGCATATCT
Found at i:89393538 original size:43 final size:43
Alignment explanation
Indices: 89393474--89393561 Score: 133
Period size: 43 Copynumber: 2.0 Consensus size: 43
89393464 GTGTTAAATT
89393474 AAATTGCACAAGCCCTGCTTTGTGCAACAATACTAGAAGAATG
1 AAATTGCACAAGCCCTGCTTTGTGCAACAATACTAGAAGAATG
* * *
89393517 AAATTGC-CGAAGTCCTTCTTTGTGCACCAATACTAGAAGAATG
1 AAATTGCAC-AAGCCCTGCTTTGTGCAACAATACTAGAAGAATG
89393560 AA
1 AA
89393562 GGCTCTCCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
42 1 0.02
43 40 0.98
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.25
Consensus pattern (43 bp):
AAATTGCACAAGCCCTGCTTTGTGCAACAATACTAGAAGAATG
Found at i:89396593 original size:28 final size:28
Alignment explanation
Indices: 89396552--89396605 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
89396542 TTAGAAAAAG
89396552 TTAAATAATTTTTTATTAAAAATATTAA
1 TTAAATAATTTTTTATTAAAAATATTAA
* *
89396580 TTAAA-AATTATTTTTTTAATAATATT
1 TTAAATAATT-TTTTATTAAAAATATT
89396606 CGCGTAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
TTAAATAATTTTTTATTAAAAATATTAA
Found at i:89402368 original size:13 final size:13
Alignment explanation
Indices: 89402346--89402370 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89402336 CGAAATAATT
89402346 TTTTGAAAATTTA
1 TTTTGAAAATTTA
89402359 TTTTGAAAATTT
1 TTTTGAAAATTT
89402371 TGACGTTTGG
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:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (13 bp):
TTTTGAAAATTTA
Found at i:89403678 original size:42 final size:42
Alignment explanation
Indices: 89403578--89403678 Score: 103
Period size: 42 Copynumber: 2.4 Consensus size: 42
89403568 TCTGGGATAT
* * *
89403578 GACATCGGTATCGATATGTGATTTCATGTAAAACCGTATCTAG
1 GACAT-GGCATCGATATGAGATTTCATGTAAAACCATATCTAG
* * * * * * *
89403621 GATATGGCGTTGATATGAGATTTCATGTAAGACCATGTTTGG
1 GACATGGCATCGATATGAGATTTCATGTAAAACCATATCTAG
89403663 GACATGGCATCGATAT
1 GACATGGCATCGATAT
89403679 ATGGTCCCGT
Statistics
Matches: 45, Mismatches: 13, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
42 41 0.91
43 4 0.09
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.33
Consensus pattern (42 bp):
GACATGGCATCGATATGAGATTTCATGTAAAACCATATCTAG
Found at i:89403776 original size:48 final size:48
Alignment explanation
Indices: 89403736--89403858 Score: 158
Period size: 48 Copynumber: 2.6 Consensus size: 48
89403726 TGAGACTTCG
*
89403736 TGTAAGACCATATCTGGGATATGGCATTGGCATC-AGTATGAGATCCCA
1 TGTAAGACCATATCTGGGATATGGCATTAGCATCGA-TATGAGATCCCA
* * *
89403784 TGTAAGCCCATATCTGGGATATGGCATTAGCATCGATATGAGGTCCCG
1 TGTAAGACCATATCTGGGATATGGCATTAGCATCGATATGAGATCCCA
* * * *
89403832 TATAAGGCCATGTCTGGGACATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
89403859 CGGCACCGTT
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
48 65 0.98
49 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (48 bp):
TGTAAGACCATATCTGGGATATGGCATTAGCATCGATATGAGATCCCA
Found at i:89422897 original size:53 final size:53
Alignment explanation
Indices: 89422816--89422966 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
89422806 CTTACACGGT
* *
89422816 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
89422871 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
89422924 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
89422967 GCGCACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:89428017 original size:46 final size:46
Alignment explanation
Indices: 89427950--89428042 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
89427940 AGTCCCTAAC
89427950 TTACTTCTACATTCACCGGGGTGACTTCTTCCACAATGTTGACACT
1 TTACTTCTACATTCACCGGGGTGACTTCTTCCACAATGTTGACACT
89427996 TTACTTCTACATTCACCGGGGTGACTTCTTCCACAATGTTGACACT
1 TTACTTCTACATTCACCGGGGTGACTTCTTCCACAATGTTGACACT
89428042 T
1 T
89428043 AGGCCTTTGG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (46 bp):
TTACTTCTACATTCACCGGGGTGACTTCTTCCACAATGTTGACACT
Found at i:89430451 original size:53 final size:53
Alignment explanation
Indices: 89430370--89430520 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
89430360 CTTACACGGT
* *
89430370 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
89430425 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
89430478 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
89430521 GTGCACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:89446674 original size:25 final size:24
Alignment explanation
Indices: 89446646--89446727 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 24
89446636 TTTAATATAT
*
89446646 TTTTATATTTATATTTTGTATAATA
1 TTTTATATTTATATTTTTTATAA-A
89446671 TTTTATAATTT-T-TTGTTTTATAAA
1 TTTTAT-ATTTATATT-TTTTATAAA
* * *
89446695 ATTGAAATATTATATTTTTTATAAA
1 TTTTATAT-TTATATTTTTTATAAA
89446720 TTTTATAT
1 TTTTATAT
89446728 ACAAGTTTGA
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
23 2 0.04
24 8 0.18
25 29 0.64
26 6 0.13
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (24 bp):
TTTTATATTTATATTTTTTATAAA
Found at i:89451816 original size:20 final size:21
Alignment explanation
Indices: 89451791--89451829 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
89451781 TAAATTTTCC
89451791 TTTTCTT-TTTCTTTCCCTTT
1 TTTTCTTATTTCTTTCCCTTT
89451811 TTTTCTTATTTCTTTCCCT
1 TTTTCTTATTTCTTTCCCT
89451830 GCTATTCCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTCTTATTTCTTTCCCTTT
Found at i:89451894 original size:9 final size:9
Alignment explanation
Indices: 89451882--89451906 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
89451872 TTATTTTATT
89451882 TATTATAAC
1 TATTATAAC
89451891 TATTATAAC
1 TATTATAAC
89451900 TATTATA
1 TATTATA
89451907 TTATTATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (9 bp):
TATTATAAC
Found at i:89452545 original size:12 final size:12
Alignment explanation
Indices: 89452528--89452552 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
89452518 TAATTGAGAT
89452528 AAACTTTAAAAC
1 AAACTTTAAAAC
89452540 AAACTTTAAAAC
1 AAACTTTAAAAC
89452552 A
1 A
89452553 TTATAATGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (12 bp):
AAACTTTAAAAC
Found at i:89452782 original size:23 final size:22
Alignment explanation
Indices: 89452754--89452798 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 22
89452744 AACATTGGGT
89452754 AAAATTAAATATATTATATTATA
1 AAAATTAAATATATTA-ATTATA
89452777 AAAATTAAATATATTAATTATA
1 AAAATTAAATATATTAATTATA
89452799 TATTTAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AAAATTAAATATATTAATTATA
Found at i:89452807 original size:27 final size:23
Alignment explanation
Indices: 89452753--89452825 Score: 74
Period size: 23 Copynumber: 3.0 Consensus size: 23
89452743 AAACATTGGG
89452753 TAAAATTAAATATATTATATTAT
1 TAAAATTAAATATATTATATTAT
*
89452776 AAAAATTAAATATATTAATTATATATT
1 TAAAATTAAATATATT-A-TAT-TA-T
* *
89452803 TAAAATTATATCTATTTATATTA
1 TAAAATTAAATATA-TTATATTA
89452826 AATCACTAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
23 15 0.37
24 1 0.02
25 5 0.12
26 5 0.12
27 13 0.32
28 2 0.05
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (23 bp):
TAAAATTAAATATATTATATTAT
Found at i:89452825 original size:29 final size:28
Alignment explanation
Indices: 89452763--89452825 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 28
89452753 TAAAATTAAA
89452763 TATATTATATTATAAAAATTAAATATAT
1 TATATTATATTATAAAAATTAAATATAT
* * *
89452791 TA-ATTATA-TATTTAAAATTATATCTATT
1 TATATTATATTA-TAAAAATTAAATATA-T
89452819 TATATTA
1 TATATTA
89452826 AATCACTAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
26 2 0.07
27 18 0.62
28 5 0.17
29 4 0.14
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (28 bp):
TATATTATATTATAAAAATTAAATATAT
Found at i:89461973 original size:28 final size:29
Alignment explanation
Indices: 89461942--89462004 Score: 87
Period size: 28 Copynumber: 2.2 Consensus size: 29
89461932 CCAAAATATA
*
89461942 TTATATTA-TAAATATTAATTATAT-TAAT
1 TTATATTATTAAATAATAATTATATCT-AT
89461970 TTATA-TATTAAATAATAATTATATCTAT
1 TTATATTATTAAATAATAATTATATCTAT
89461998 TTATATT
1 TTATATT
89462005 GAATCACTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
27 2 0.06
28 27 0.87
29 2 0.06
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (29 bp):
TTATATTATTAAATAATAATTATATCTAT
Found at i:89463981 original size:3 final size:3
Alignment explanation
Indices: 89463973--89464100 Score: 68
Period size: 3 Copynumber: 43.0 Consensus size: 3
89463963 TTTTATTAAT
* * *
89463973 TTA TTA TTA TTA TGT- TTG TTA ATA TT- TTT TGTA TTA TTA TT- TCTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T-TA
* * * * *
89464018 TTA TTA CTA TCA CTA TTA TT- TTAA TTA GTA TTG TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA
* * * * *
89464063 GTA GTA TTA CTA CTA TTA TTA TTA TTA TCA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
89464101 AATTAATTAG
Statistics
Matches: 96, Mismatches: 20, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
2 7 0.07
3 83 0.86
4 6 0.06
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:89465935 original size:36 final size:36
Alignment explanation
Indices: 89465889--89465960 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
89465879 AGGCTGATAG
*
89465889 TTCATGGAGGAAAATAAGACTTTACCTAAGGATTCA
1 TTCATAGAGGAAAATAAGACTTTACCTAAGGATTCA
*
89465925 TTCATAGAGGAAAATAAGACTTTACCTGAGGATTCA
1 TTCATAGAGGAAAATAAGACTTTACCTAAGGATTCA
89465961 AGTCGATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (36 bp):
TTCATAGAGGAAAATAAGACTTTACCTAAGGATTCA
Found at i:89466285 original size:19 final size:19
Alignment explanation
Indices: 89466244--89466285 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
89466234 TACTTTCTTT
*
89466244 TGCATTCATTCCATGCATT
1 TGCATTCATTCCATGCATG
*
89466263 TGCATTGCATTGCAT-CATG
1 TGCATT-CATTCCATGCATG
89466282 TGCA
1 TGCA
89466286 CTAAACTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (19 bp):
TGCATTCATTCCATGCATG
Found at i:89470981 original size:44 final size:44
Alignment explanation
Indices: 89470925--89471337 Score: 143
Period size: 44 Copynumber: 9.4 Consensus size: 44
89470915 CACCCTATCT
* *
89470925 CCCTAAGCAGTAGTGGAGTAGGTTGAAGACGGTGAGCCTTAACC
1 CCCTAAGCAGTAGTGGAATAGGTCGAAGACGGTGAGCCTTAACC
* *** * * *
89470969 CCCTAAGCAGTAG-GGAAATAGGCTAGAA-ATCACAGA-TCTTATCT
1 CCCTAAGCAGTAGTGG-AATAGG-TCGAAGA-CGGTGAGCCTTAACC
* * *
89471013 CCCTAAGCAGTAGTGGAATAGATCAAATACGGTGAGCCTTAACC
1 CCCTAAGCAGTAGTGGAATAGGTCGAAGACGGTGAGCCTTAACC
* * *** * * *
89471057 CCCTAAGCAGTAG-GGCAACAGG-CTGAAAATTAT-AGATCTTATCT
1 CCCTAAGCAGTAGTGG-AATAGGTC-GAAGACGGTGAG-CCTTAACC
** *
89471101 CCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAACC
1 CCCTAAGCAGTAGTGGAATAGGTCGAAGACGGTGAGCCTTAACC
* * * * * *** * * *
89471145 GCCTAAGTACTAG-GGAAACAGGCTAGAA-ATCACAGA-TCTTATCT
1 CCCTAAGCAGTAGTGG-AATAGG-TCGAAGA-CGGTGAGCCTTAACC
* * *
89471189 CCCTAAGCAGTAGT-GAAGTAGATCAAATACGGTGAGCCTTAACC
1 CCCTAAGCAGTAGTGGAA-TAGGTCGAAGACGGTGAGCCTTAACC
* * * * * * * * * *
89471233 CCTTAAGCAGTAGAGCAACAGGCTAGAA-A--TTACAGATCTTATCT
1 CCCTAAGCAGTAGTGGAATAGG-TCGAAGACGGT-GAG-CCTTAACC
* ** *
89471277 CCCTAAGCAGTAGTGGAGTAAATCGAAGACGGTGAACCTTAACC
1 CCCTAAGCAGTAGTGGAATAGGTCGAAGACGGTGAGCCTTAACC
*
89471321 CCTTAAGCAGTAG-GGAA
1 CCCTAAGCAGTAGTGGAA
89471338 ACAGGCTGAA
Statistics
Matches: 254, Mismatches: 89, Indels: 53
0.64 0.22 0.13
Matches are distributed among these distances:
42 1 0.00
43 32 0.13
44 193 0.76
45 27 0.11
46 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.21
Consensus pattern (44 bp):
CCCTAAGCAGTAGTGGAATAGGTCGAAGACGGTGAGCCTTAACC
Found at i:89471934 original size:88 final size:88
Alignment explanation
Indices: 89470868--89471915 Score: 1404
Period size: 88 Copynumber: 11.9 Consensus size: 88
89470858 TGAATTCACT
* * * *
89470868 AGCCTTATCCCCCTAAGCAGTAGGGAAACAGGCT-GAAAATGACAGACCACCCTATCTCCCTAAG
1 AGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAG-AAATTACAG---ATCTTATCTCCCTAAG
* * *
89470932 CAGTAGTGGAGTAGGTTGAAGACGGTG
62 CAGTAGTGGAGCAGATCGAAGACGGTG
* *
89470959 AGCCTTAACCCCCTAAGCAGTAGGGAAATAGGCTAGAAATCACAGATCTTATCTCCCTAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTACAGATCTTATCTCCCTAAGCAGT
** * *
89471024 AGTGGAATAGATCAAATACGGTG
66 AGTGGAGCAGATCGAAGACGGTG
* *
89471047 AGCCTTAACCCCCTAAGCAGTAGGGCAACAGGCT-GAAAATTATAGATCTTATCTCCCTAAGCAG
1 AGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAG-AAATTACAGATCTTATCTCCCTAAGCAG
89471111 TAGTGGAGCAGATCGAAGACGGTG
65 TAGTGGAGCAGATCGAAGACGGTG
* * * *
89471135 AGCCTTAACCGCCTAAGTACTAGGGAAACAGGCTAGAAATCACAGATCTTATCTCCCTAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTACAGATCTTATCTCCCTAAGCAGT
* * * *
89471200 AGTGAAGTAGATCAAATACGGTG
66 AGTGGAGCAGATCGAAGACGGTG
* * *
89471223 AGCCTTAACCCCTTAAGCAGTAGAGCAACAGGCTAGAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTACAGATCTTATCTCCCTAAGCAGT
* *
89471288 AGTGGAGTAAATCGAAGACGGTG
66 AGTGGAGCAGATCGAAGACGGTG
* * *
89471311 AACCTTAACCCCTTAAGCAGTAGGGAAACAGGCT-GAAAATTACAGATCTTATCTCCCTAAGTAG
1 AGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAG-AAATTACAGATCTTATCTCCCTAAGCAG
* * *
89471375 TAGTGGAGTAGATCAAATACGGTG
65 TAGTGGAGCAGATCGAAGACGGTG
* * * * * *
89471399 AGCTTTAACCCCCTAAGCAGTAGGGCAACATGCT-GAAAATTATAGATTTTATCTCCTTAAGCAG
1 AGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAG-AAATTACAGATCTTATCTCCCTAAGCAG
* *
89471463 TAGTGGAGCAGATCGAATACAGTG
65 TAGTGGAGCAGATCGAAGACGGTG
* **
89471487 AGCCTTAACCCCC-AAGCAGTAGGGAAACAGGCTAGAAATCACAGATCTTATCTCCCTAAATAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTACAGATCTTATCTCCCTAAGCAGT
* * *
89471551 AGTGGAGTAGATCAAATACGGTG
66 AGTGGAGCAGATCGAAGACGGTG
* *
89471574 AGCCTTAACCCCCTAAGCAGTAGGGCAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTACAGATCTTATCTCCCTAAGCAGT
89471639 AGTGGAGCAGATCGAAGACGGTG
66 AGTGGAGCAGATCGAAGACGGTG
* * * * *
89471662 AGCCTTAACCCTCTAAGCAGTAGGGCAACAGGCTAAAAATTACAGATTTTATCTCCCTAAGCAAT
1 AGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTACAGATCTTATCTCCCTAAGCAGT
*
89471727 AGTGGAGCAGATCGAAGATGGTG
66 AGTGGAGCAGATCGAAGACGGTG
* * * *
89471750 AACCTGAACCCCCTAAGCAGTAGGGAAATAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTACAGATCTTATCTCCCTAAGCAGT
*
89471815 GGTGGAGCAGATCGAAGACGGTG
66 AGTGGAGCAGATCGAAGACGGTG
* * * *
89471838 AGCCTTATCCCCCTAAGTAGTAGGGAAACAGGCTAGAAATTACAAATCTTATCTCCCTAAGTAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTACAGATCTTATCTCCCTAAGCAGT
*
89471903 AATGGAGCAGATC
66 AGTGGAGCAGATC
89471916 AAGGACAGTA
Statistics
Matches: 846, Mismatches: 105, Indels: 15
0.88 0.11 0.02
Matches are distributed among these distances:
87 76 0.09
88 728 0.86
89 1 0.00
91 40 0.05
92 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (88 bp):
AGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTACAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGAAGACGGTG
Found at i:89473324 original size:3 final size:3
Alignment explanation
Indices: 89473316--89473443 Score: 50
Period size: 3 Copynumber: 43.0 Consensus size: 3
89473306 TTTTATTAAT
* * *
89473316 TTA TTA TTA TTA TGT- TTG TTA ATA TT- TTT TGTA TTA TTA TT- TCTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T-TA
* * * * * *
89473361 TTA TTA CTA TCA CTA TTA TT- TTAA TTA GTA TTG TTA TTA TTA GTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA
* * * * * *
89473406 GTA GTA TTA CTA CTA CTA TTA TTA TTA TCA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
89473444 AATTAATTAG
Statistics
Matches: 96, Mismatches: 20, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
2 7 0.07
3 83 0.86
4 6 0.06
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:89473365 original size:15 final size:15
Alignment explanation
Indices: 89473347--89473443 Score: 70
Period size: 15 Copynumber: 6.3 Consensus size: 15
89473337 ATATTTTTTG
*
89473347 TATTATTATTTCTAT
1 TATTATTATTACTAT
* *
89473362 TATTACTATCACTAT
1 TATTATTATTACTAT
*
89473377 TATT-TTAATTAGTAT
1 TATTATT-ATTACTAT
* * *
89473392 TGTTATTATTAGTAG
1 TATTATTATTACTAT
* * *
89473407 TAGTATTACTACTAC
1 TATTATTATTACTAT
89473422 TATTATTATTATCATAT
1 TATTATTATTA-C-TAT
89473439 TATTA
1 TATTA
89473444 AATTAATTAG
Statistics
Matches: 62, Mismatches: 16, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
14 1 0.02
15 51 0.82
16 3 0.05
17 7 0.11
ACGTcount: A:0.32, C:0.08, G:0.05, T:0.55
Consensus pattern (15 bp):
TATTATTATTACTAT
Found at i:89475644 original size:29 final size:28
Alignment explanation
Indices: 89475590--89475649 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
89475580 TAATTTGAGA
* *
89475590 TTTTTTTATATTTTGTGGTTATAGAATT
1 TTTTTTTATATTTTGTGGTTAAAGAAGT
*
89475618 TTTTTTTGTA-TTTGTGCGTATAAAGAAGT
1 TTTTTTTATATTTTGTG-GT-TAAAGAAGT
89475647 TTT
1 TTT
89475650 ATGATAATGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 6 0.22
28 11 0.41
29 10 0.37
ACGTcount: A:0.22, C:0.02, G:0.17, T:0.60
Consensus pattern (28 bp):
TTTTTTTATATTTTGTGGTTAAAGAAGT
Found at i:89499414 original size:12 final size:13
Alignment explanation
Indices: 89499399--89499448 Score: 54
Period size: 12 Copynumber: 4.2 Consensus size: 13
89499389 TAAACATTAA
89499399 ATTAA-ATTAAAT
1 ATTAAGATTAAAT
*
89499411 ATTAAGA-TAAGT
1 ATTAAGATTAAAT
89499423 ATTAA-ATTAAAT
1 ATTAAGATTAAAT
*
89499435 -TTAATATTAAAT
1 ATTAAGATTAAAT
89499447 AT
1 AT
89499449 ATCAAAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
11 5 0.16
12 25 0.78
13 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (13 bp):
ATTAAGATTAAAT
Found at i:89499415 original size:62 final size:59
Alignment explanation
Indices: 89499300--89499415 Score: 160
Period size: 62 Copynumber: 1.9 Consensus size: 59
89499290 TCACTTAAAC
* * * *
89499300 ATTAAATTAATATAATATTTATCAAAATAAATATTAAATTAAATTTAGCATTAAATCTT
1 ATTAAATTAATAAAATATTTATCAAAATAAACATTAAATTAAATTAAACATTAAATCTT
*
89499359 ATTAAATTAATAAAATATTTATCTACAAGATAAACATTAAATTAAATTAAATATTAA
1 ATTAAATTAATAAAATATTTATC-A-AA-ATAAACATTAAATTAAATTAAACATTAA
89499416 GATAAGTATT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 22 0.45
60 1 0.02
61 2 0.04
62 24 0.49
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (59 bp):
ATTAAATTAATAAAATATTTATCAAAATAAACATTAAATTAAATTAAACATTAAATCTT
Found at i:89499418 original size:29 final size:29
Alignment explanation
Indices: 89499385--89499444 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
89499375 ATTTATCTAC
89499385 AAGATAAACATTAAATTAAATTAAATATT
1 AAGATAAACATTAAATTAAATTAAATATT
** *
89499414 AAGATAAGTATTAAATTAAATTTAATATT
1 AAGATAAACATTAAATTAAATTAAATATT
89499443 AA
1 AA
89499445 ATATATCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.37
Consensus pattern (29 bp):
AAGATAAACATTAAATTAAATTAAATATT
Found at i:89501227 original size:11 final size:11
Alignment explanation
Indices: 89501208--89501236 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
89501198 TATTTTGTGA
89501208 AAAAT-AAAAT
1 AAAATAAAAAT
89501218 AAAATAAAAAT
1 AAAATAAAAAT
89501229 AAAATAAA
1 AAAATAAA
89501237 GAACACACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:89506112 original size:19 final size:19
Alignment explanation
Indices: 89506084--89506137 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 19
89506074 CAGAAATAAA
89506084 AAAAAT-TAAAATTATTTT
1 AAAAATATAAAATTATTTT
*
89506102 AAAAATAT-AAATTAATTT
1 AAAAATATAAAATTATTTT
* *
89506120 AAAAAAATATAATT-TTTT
1 AAAAATATAAAATTATTTT
89506138 TGGACAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
18 25 0.83
19 5 0.17
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
AAAAATATAAAATTATTTT
Found at i:89507387 original size:2 final size:2
Alignment explanation
Indices: 89507350--89507375 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
89507340 GATTGAATGA
89507350 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
89507376 GAAGAGATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:89517471 original size:38 final size:38
Alignment explanation
Indices: 89517374--89517481 Score: 144
Period size: 38 Copynumber: 2.8 Consensus size: 38
89517364 GGCTTAAAGA
** * *
89517374 CCCGCAGGCTTCGTGCTGGTAAAATATCTGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
*
89517412 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAATT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
* * *
89517450 CCCGCAGGCCTAGTGCTGGTATTATATTCGGG
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGG
89517482 CCTTCGTGCC
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 62 1.00
ACGTcount: A:0.19, C:0.23, G:0.28, T:0.30
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
Found at i:89517522 original size:43 final size:43
Alignment explanation
Indices: 89517474--89517596 Score: 210
Period size: 43 Copynumber: 2.9 Consensus size: 43
89517464 GCTGGTATTA
89517474 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
* *
89517517 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
* *
89517560 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGT
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGT
89517597 AAAATGATAT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 74 1.00
ACGTcount: A:0.12, C:0.26, G:0.33, T:0.29
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
Found at i:89519209 original size:48 final size:48
Alignment explanation
Indices: 89519115--89519218 Score: 122
Period size: 48 Copynumber: 2.2 Consensus size: 48
89519105 TGTGCTAAGC
* * *
89519115 GTAAGACCTATCTGGGATAGGCATCGGCACAGCCCAGTGAGTGCTAGT
1 GTAAGACCTATCTGGGATAGGCATCAGCACAGCCCAGAGAGAGCTAGT
**
89519163 GTAAGACCTATC-GGGAATAGGCATCAGCAC-GGTCAGAGCAGAGCTAGT
1 GTAAGACCTATCTGGG-ATAGGCATCAGCACAGCCCAGAG-AGAGCTAGT
*
89519211 ATAAGACC
1 GTAAGACC
89519219 ATAGTTGGAC
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
47 8 0.17
48 40 0.83
ACGTcount: A:0.30, C:0.22, G:0.30, T:0.18
Consensus pattern (48 bp):
GTAAGACCTATCTGGGATAGGCATCAGCACAGCCCAGAGAGAGCTAGT
Found at i:89521146 original size:46 final size:45
Alignment explanation
Indices: 89521079--89521253 Score: 181
Period size: 46 Copynumber: 3.8 Consensus size: 45
89521069 TGTAACCCGC
*
89521079 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* * * *
89521125 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-G-GGCTTCGCAT
* *** * **
89521171 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
*
89521218 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
89521254 ATGCCCAAAT
Statistics
Matches: 104, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
45 1 0.01
46 68 0.65
47 33 0.32
48 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCAT
Found at i:89521198 original size:93 final size:93
Alignment explanation
Indices: 89521086--89521258 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
89521076 CGCCCATAAG
** *
89521086 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
89521151 ACGAGCTCAGATGCCTAGTTACATCTCT
66 ACGAGCTCAGATGCCTAGTTACATCTCT
*
89521179 CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
89521244 ACGAGTTCGGATGCC
66 ACGAGCTCAGATGCC
89521259 CAAATATCCC
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCAGATGCCTAGTTACATCTCT
Found at i:89527672 original size:52 final size:49
Alignment explanation
Indices: 89527489--89527681 Score: 200
Period size: 47 Copynumber: 4.0 Consensus size: 49
89527479 TGCACATAGT
* ** * *
89527489 CACATATCACA-TACCGAGGCCATAGCCCAGCCATGGTCTTACACGG-AT
1 CACATATCACACT-CCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
* * *
89527537 CACATATCACACT--GATGCCATATCCCAGATATGGTCTTATACAGTAG
1 CACATATCACACTCCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
* *
89527584 CACATATCACA--CCGATGCCATATCCCGGATATGGTCTTATACGGAAG
1 CACATATCACACTCCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
* *
89527631 CACATATCACATTTCTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAA
1 CACATATCACA---CTCCGATGCCATAGCCCAGATATGGTCTTATACGGAA
89527682 ATCACATTTC
Statistics
Matches: 122, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
46 25 0.20
47 54 0.44
48 11 0.09
49 1 0.01
52 31 0.25
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (49 bp):
CACATATCACACTCCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
Found at i:89529687 original size:44 final size:43
Alignment explanation
Indices: 89529580--89529690 Score: 109
Period size: 44 Copynumber: 2.6 Consensus size: 43
89529570 TTCAACCTGT
* * *
89529580 TCCACTACTGCTTAGGGACACAAGGTTTGTATCTTCAACTTGC
1 TCCACTACTGCTTAGGGAGATAAGGTTTGTATCTTCAACTTAC
* * ** *
89529623 T-CTCTGCAACTTCAGAGAGATAAGGTTTGCTATCTTCAA-TCTAC
1 TCCACTACTGCTT-AGGGAGATAAGGTTTG-TATCTTCAACT-TAC
89529667 TCCACTACTGCTTAGGGAGATAAG
1 TCCACTACTGCTTAGGGAGATAAG
89529691 ATCTTGTAAT
Statistics
Matches: 51, Mismatches: 13, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
42 7 0.14
43 15 0.29
44 22 0.43
45 7 0.14
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (43 bp):
TCCACTACTGCTTAGGGAGATAAGGTTTGTATCTTCAACTTAC
Found at i:89530024 original size:90 final size:88
Alignment explanation
Indices: 89529654--89530059 Score: 294
Period size: 90 Copynumber: 4.6 Consensus size: 88
89529644 AAGGTTTGCT
* * ** ** *
89529654 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTTGTAATCCTC-CAGCCTTTTACCC
1 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC-TGTAATTTTCTC-GTATATTACCC
* **
89529718 TACTGCTTAGGGAGTTAAAGCCTGCTCATT
64 TACTGCTTAGGG-GTT-AAG---ACTCACC
* * * *
89529748 ATCTTCGATCTGCTCCACTGCTGCTTAGGGAGATAAGATCTGTAATCTTC-AGCT-TGCTCTA--
1 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCTCG-TAT-AT-TACC
* * * **
89529809 CTGCTGCTCAGGGAGATAA-AGCTTTCC
63 CTACTGCTTAGGG-GTTAAGA-CTCACC
* * * * * * * *
89529836 ATTTTCGATCCGCTCCATTATTGCTTAGGGAAATAGGATCTG---TTTTC-AGTCA-GTTACCCT
1 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCTCGT-ATATTACCCT
*
89529896 ATTGCTTAGGGGTTAAGACTCACC
65 ACTGCTTAGGGGTTAAGACTCACC
* * *
89529920 ATCTTTGATCTGCTCCACTATTGCTTAGGGAGATAAAGATCTGTCATTTTCTCGTATATTACCCT
1 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGAT-AAGATCTGTAATTTTCTCGTATATTACCCT
* *
89529985 ACTGCTTAGGGGGTTAAGGCTCATC
65 ACTGCTTA-GGGGTTAAGACTCACC
*
89530010 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTC
1 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTC
89530060 GATCCACTCC
Statistics
Matches: 251, Mismatches: 45, Indels: 37
0.75 0.14 0.11
Matches are distributed among these distances:
83 2 0.01
84 39 0.16
85 24 0.10
88 43 0.17
89 31 0.12
90 45 0.18
91 2 0.01
92 16 0.06
93 10 0.04
94 39 0.16
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.34
Consensus pattern (88 bp):
ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCTCGTATATTACCCTA
CTGCTTAGGGGTTAAGACTCACC
Found at i:89530061 original size:44 final size:44
Alignment explanation
Indices: 89529661--89530095 Score: 175
Period size: 44 Copynumber: 9.8 Consensus size: 44
89529651 GCTATCTTCA
* ** *
89529661 ATCTACTCCACTACTGCTTAGGGAGATAAGATCTTGTAATCCTCC
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATC-TGTAATTTTCG
* ** * * *
89529706 AGCCTTTTACC-CTACTGCTTAGGGAGTTAA-AGCCTGCTCATTATCTTCG
1 A-TCTGCT-CCACTACTGCTTAGGGAGATAAGA-TCTG-T-A--ATTTTCG
* *
89529755 ATCTGCTCCACTGCTGCTTAGGGAGATAAGATCTGTAATCTTC-
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCG
* * * * * * *
89529798 AGCTTGCTCTACTGCTGCTCAGGGAGATAA-AGCTTTCCATTTTCG
1 ATC-TGCTCCACTACTGCTTAGGGAGATAAGATCTGT-AATTTTCG
* * * * *
89529843 ATCCGCTCCATTATTGCTTAGGGAAATAGGATCTG---TTTTC-
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCG
* * * * *
89529883 AGTCAGTTACC-CTATTGCTTAGGG-GTTAAGA-CT-CACCATCTTT-G
1 A-TCTGCT-CCACTACTGCTTAGGGAGATAAGATCTGTA--AT-TTTCG
* *
89529927 ATCTGCTCCACTATTGCTTAGGGAGATAAAGATCTGTCATTTTCTCG
1 ATCTGCTCCACTACTGCTTAGGGAGAT-AAGATCTGT-AATTT-TCG
* * * * * ** *
89529974 TATAT--TACC-CTACTGCTTAGGGGGTTAAG-GCTCATCGTCTTCG
1 -ATCTGCT-CCACTACTGCTTAGGGAGATAAGATCT-GTAATTTTCG
89530017 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCG
** * *
89530061 ATCCACTCCACTATTGCTTAGGGAGATAGGATCTG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
89530096 CCGATATTTA
Statistics
Matches: 290, Mismatches: 63, Indels: 75
0.68 0.15 0.18
Matches are distributed among these distances:
39 2 0.01
40 5 0.02
41 21 0.07
42 7 0.02
43 29 0.10
44 119 0.41
45 21 0.07
46 43 0.15
47 9 0.03
48 27 0.09
49 7 0.02
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (44 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCG
Found at i:89537177 original size:53 final size:53
Alignment explanation
Indices: 89537021--89537186 Score: 221
Period size: 53 Copynumber: 3.1 Consensus size: 53
89537011 GACGAAAAAT
* **
89537021 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
89537073 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * *
89537126 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
89537180 TATGTGA
1 -ATGTGA
89537187 ACCGTGTAAG
Statistics
Matches: 103, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 81 0.79
54 1 0.01
55 6 0.06
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:89555069 original size:54 final size:52
Alignment explanation
Indices: 89555011--89555121 Score: 118
Period size: 53 Copynumber: 2.1 Consensus size: 52
89555001 CCAAGCCCTT
89555011 CAAAAAAAATTTCTTTTACTTTGCCCCCAAATA-TTTTACTTCCTCC-AAATCCCC
1 CAAAAAAAATTTCTTTTACTTT-CCCCCAAA-ACTTTTACTTCCTCCTAAA--CCC
* ** ** *
89555065 CAAAATATTTTTCTTTTTGTTTTCCCCAAAACTTTTACTTCCTCCTAAACCC
1 CAAAAAAAATTTCTTTTACTTTCCCCCAAAACTTTTACTTCCTCCTAAACCC
89555117 CAAAA
1 CAAAA
89555122 TTTTTTTCAA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
52 9 0.18
53 20 0.41
54 20 0.41
ACGTcount: A:0.31, C:0.30, G:0.02, T:0.38
Consensus pattern (52 bp):
CAAAAAAAATTTCTTTTACTTTCCCCCAAAACTTTTACTTCCTCCTAAACCC
Found at i:89555501 original size:19 final size:19
Alignment explanation
Indices: 89555477--89555514 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
89555467 AAAGTTAATA
89555477 ACAAATTTGATTACGGTGG
1 ACAAATTTGATTACGGTGG
*
89555496 ACAAATTTTATTACGGTGG
1 ACAAATTTGATTACGGTGG
89555515 GTGGTAGTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.34
Consensus pattern (19 bp):
ACAAATTTGATTACGGTGG
Found at i:89558001 original size:42 final size:45
Alignment explanation
Indices: 89557939--89558101 Score: 156
Period size: 49 Copynumber: 3.6 Consensus size: 45
89557929 TCGTTTTCTT
** *
89557939 GATGCCATAGCCCAAATATGGTCTTACAC-AT-AT-TCATATATC
1 GATGCCATAGCCCAGCTATGGTCTTACACAATCATATCACATATC
*
89557981 GATGCCATAGCCTAGCTATGGTCTTACACGTAATCACATATCACATATC
1 GATGCCATAGCCCAGCTATGGTCTTACAC--AAT--CATATCACATATC
* *
89558030 GATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCA-CT-
1 GATGCCATAGCCCAGCTATGGTCTTACAC-AAT--CATATCACATATC
* *
89558076 GATGCCATATCCCAGATATGGTCTTA
1 GATGCCATAGCCCAGCTATGGTCTTA
89558102 TACGGTAGCA
Statistics
Matches: 104, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
42 26 0.25
45 2 0.02
46 24 0.23
47 1 0.01
48 15 0.14
49 36 0.35
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (45 bp):
GATGCCATAGCCCAGCTATGGTCTTACACAATCATATCACATATC
Found at i:89558038 original size:49 final size:48
Alignment explanation
Indices: 89557965--89558101 Score: 188
Period size: 49 Copynumber: 2.9 Consensus size: 48
89557955 TATGGTCTTA
* *
89557965 CACATATTCATATATCGATGCCATAGCCTAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACG-AAT
89558015 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
* * * *
89558063 CACATATCTCA-CT-GATGCCATATCCCAGATATGGTCTTA
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTA
89558102 TACGGTAGCA
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
46 24 0.30
47 1 0.01
48 13 0.16
49 37 0.46
50 6 0.07
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
Found at i:89558120 original size:95 final size:91
Alignment explanation
Indices: 89557939--89558148 Score: 221
Period size: 95 Copynumber: 2.3 Consensus size: 91
89557929 TCGTTTTCTT
* * *
89557939 GATGCCATAGCCCAAATATGGTCTTACACATATTCATATATCGATGCCATAGCCTAGCTATGGTC
1 GATGCCATAGCCCAAATATGGTCTTACACATATACATATATCGATGCCATAGCCCAGATATGGTC
*
89558004 TTACACGTAATCACATATCACATATC
66 TTACACGTAAGCACATATCACATATC
** * *
89558030 GATGCCATAGCCCAGCTATGGTCTTACACGA-ATCACATATCTCACTGATGCCATATCCCAGATA
1 GATGCCATAGCCCAAATATGGTCTTACAC-ATAT-ACATATAT--C-GATGCCATAGCCCAGATA
* * *
89558094 TGGTCTTATACGGT-AGCATATATCACA-CT-
61 TGGTCTTACAC-GTAAGCACATATCACATATC
* *
89558123 GATGCCATATCCCTAATATGGTCTTA
1 GATGCCATAGCCCAAATATGGTCTTA
89558149 TACGGAAATC
Statistics
Matches: 98, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
91 29 0.30
92 7 0.07
93 22 0.22
94 2 0.02
95 36 0.37
96 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (91 bp):
GATGCCATAGCCCAAATATGGTCTTACACATATACATATATCGATGCCATAGCCCAGATATGGTC
TTACACGTAAGCACATATCACATATC
Found at i:89558130 original size:47 final size:46
Alignment explanation
Indices: 89557981--89558148 Score: 185
Period size: 47 Copynumber: 3.6 Consensus size: 46
89557971 TTCATATATC
* * *
89557981 GATGCCATAGCCTAGCTATGGTCTTACACGTAATCACATATCACATAT
1 GATGCCATAGCCCAGATATGGTCTTACACGT-ATCACATATCACA-CT
* * *
89558029 CGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCACT
1 -GATGCCATAGCCCAGATATGGTCTTACACGTATCACATATCACACT
* * * *
89558076 GATGCCATATCCCAGATATGGTCTTATACGGTAGCATATATCACACT
1 GATGCCATAGCCCAGATATGGTCTTACAC-GTATCACATATCACACT
*
89558123 GATGCCATATCCCTA-ATATGGTCTTA
1 GATGCCATAGCCC-AGATATGGTCTTA
89558149 TACGGAAATC
Statistics
Matches: 106, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
46 26 0.25
47 38 0.36
48 13 0.12
49 29 0.27
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (46 bp):
GATGCCATAGCCCAGATATGGTCTTACACGTATCACATATCACACT
Found at i:89558220 original size:31 final size:31
Alignment explanation
Indices: 89558184--89558325 Score: 214
Period size: 31 Copynumber: 4.6 Consensus size: 31
89558174 CTTATAGACA
89558184 AAGCTACCA-TTATTCACTGATCAGGTAGCCG
1 AAGCTACCACTT-TTCACTGATCAGGTAGCCG
* *
89558215 GAGCTACCATTTTTCACTGATCAGGTAGCCG
1 AAGCTACCACTTTTCACTGATCAGGTAGCCG
* * *
89558246 GAGCTACCACTTTTCACTGATCATGTAGCAG
1 AAGCTACCACTTTTCACTGATCAGGTAGCCG
*
89558277 AAGCTACAACTTTTCACTGATCAGGTAGCCG
1 AAGCTACCACTTTTCACTGATCAGGTAGCCG
89558308 AAGCTACCACTTTTCACT
1 AAGCTACCACTTTTCACT
89558326 TGTCATTTGT
Statistics
Matches: 101, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
31 99 0.98
32 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (31 bp):
AAGCTACCACTTTTCACTGATCAGGTAGCCG
Found at i:89558406 original size:50 final size:51
Alignment explanation
Indices: 89558301--89558429 Score: 215
Period size: 50 Copynumber: 2.5 Consensus size: 51
89558291 CACTGATCAG
* * *
89558301 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCATTGATCAGATAAGT
*
89558352 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCATTGATCAGATAAGT
89558402 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
89558430 TGCCATGGTC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
50 48 0.66
51 25 0.34
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCATTGATCAGATAAGT
Found at i:89561586 original size:47 final size:48
Alignment explanation
Indices: 89561517--89561612 Score: 131
Period size: 47 Copynumber: 2.0 Consensus size: 48
89561507 TCATTAGGGA
* * * *
89561517 ATACATTGATTTGGCTTCGGGCCATGATTTTGG-ACTTCGGGTGCGAG
1 ATACATTAAGTTGGCTTCGGGCCATGATATTGGCACTTAGGGTGCGAG
* *
89561564 ATACATTAAGTTGGCTTTGGGCCATTATATTGGCACTTAGGGTGCGAG
1 ATACATTAAGTTGGCTTCGGGCCATGATATTGGCACTTAGGGTGCGAG
89561612 A
1 A
89561613 CTCCCGAGTA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
47 28 0.67
48 14 0.33
ACGTcount: A:0.21, C:0.16, G:0.30, T:0.33
Consensus pattern (48 bp):
ATACATTAAGTTGGCTTCGGGCCATGATATTGGCACTTAGGGTGCGAG
Found at i:89571932 original size:24 final size:24
Alignment explanation
Indices: 89571884--89571936 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
89571874 CTTGGTCCCA
* **
89571884 CAGGCTTCTTTGGTTGCTAACCAG
1 CAGGCTTCTTTGGATAATAACCAG
*
89571908 CAGGCTTCTTTGGATAATAATCAG
1 CAGGCTTCTTTGGATAATAACCAG
89571932 CAGGC
1 CAGGC
89571937 CTCTAGTAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (24 bp):
CAGGCTTCTTTGGATAATAACCAG
Found at i:89572625 original size:15 final size:16
Alignment explanation
Indices: 89572595--89572633 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
89572585 TGCAATTTTG
89572595 TAAA-TAAATGGAAGT
1 TAAATTAAATGGAAGT
*
89572610 TTAATTAAAT-GAAGT
1 TAAATTAAATGGAAGT
89572625 TAAATTAAA
1 TAAATTAAA
89572634 GAATGAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.54, C:0.00, G:0.13, T:0.33
Consensus pattern (16 bp):
TAAATTAAATGGAAGT
Found at i:89575322 original size:261 final size:263
Alignment explanation
Indices: 89574942--89575454 Score: 708
Period size: 261 Copynumber: 2.0 Consensus size: 263
89574932 GAGAGTATGA
* * * * *
89574942 GTGAAATTCTAAAGGAATCTTCGATCATTTTGGACAAACAGGAAATTGCAACCTAGCACGATAGA
1 GTGAAATTCTAAAGGAATATTCAATCATTTTGAACAAACAGGAAATCGCAACCCAGCACGATAGA
* * *
89575007 GCACGATTCCCCGAATTGCCAAACATCGAAAATTACCTTCGTTTTGAAGAGTTTTTAGAAAACGT
66 GCACGATTCCCCGAATTACCAAACATCGAAAATTACCTTCGTTTTAAAGAGTTTTTAGAAAACAT
* * * * *
89575072 GAGTGAAATTCAAAAGGGACCTTAGATTATTTTGAACCAATGAGAAATTGTAACCCAACACGATA
131 GAATGAAATTCAAAAGGGACATTAGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATA
* *
89575137 GGGCACAATTTCGCGAATTGCCAAATATCGAACATCGCCTTCG-CTTAAAGAATTTTTAAAGACA
196 GGGCACAATTCCGCGAATTGCCAAATATCAAACATCGCCTTCGTCTTAAAGAATTTTTAAAGACA
89575201 TGG
261 TGG
** * *
89575204 GTGAAATT-TCAAAGGAATATTCAATTGTTTTGAACGAACGGGAAATCGCAACCCAGCACGATAG
1 GTGAAATTCT-AAAGGAATATTCAATCATTTTGAACAAACAGGAAATCGCAACCCAGCACGATAG
* * ** *
89575268 GGCACGATT-CTCGAATTACCAAACATCGAGTATTACCTTTGTTTTAAAGAGTTTTTAGAAAACA
65 AGCACGATTCCCCGAATTACCAAACATCGAAAATTACCTTCGTTTTAAAGAGTTTTTAGAAAACA
* * * * *
89575332 TGAATGAAGTTCCAAAGGGACATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTT
130 TGAATGAAATTCAAAAGGGACATTAGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGAT
* * *
89575397 AGGGCACGATTCCGCGAATTGTCAAATATCAAACATCGCCTTCGTTTTAAAGAATTTT
195 AGGGCACAATTCCGCGAATTGCCAAATATCAAACATCGCCTTCGTCTTAAAGAATTTT
89575455 CTTTAAAAAA
Statistics
Matches: 217, Mismatches: 32, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
261 144 0.66
262 73 0.34
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (263 bp):
GTGAAATTCTAAAGGAATATTCAATCATTTTGAACAAACAGGAAATCGCAACCCAGCACGATAGA
GCACGATTCCCCGAATTACCAAACATCGAAAATTACCTTCGTTTTAAAGAGTTTTTAGAAAACAT
GAATGAAATTCAAAAGGGACATTAGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATA
GGGCACAATTCCGCGAATTGCCAAATATCAAACATCGCCTTCGTCTTAAAGAATTTTTAAAGACA
TGG
Found at i:89575388 original size:131 final size:131
Alignment explanation
Indices: 89574938--89575454 Score: 513
Period size: 132 Copynumber: 3.9 Consensus size: 131
89574928 TTTAGAGAGT
* * * * * *
89574938 ATGAGTGAAATTCTAAAGGAATC-TTCGATCATTTTGGACAAAC-AGGAAATTGCAACCTAGCAC
1 ATGAGTGAAATTCCAAAGGGA-CATTCGATTATTTTGAACAAACGA-GAAATTGCAACCCAACAC
* *
89575001 GATAGAGCACGATTCCCCGAATTGCCAAACATCGAAAATTACCTTCGTTTTGAAGAGTTTTTAGA
64 GATAGGGCACGATT-CCCGAATTGCCAAACATCGAAAATTACCTTCGTTTTAAAGAGTTTTTAGA
89575066 AAAC
128 AAAC
* * * * * * *
89575070 GTGAGTGAAATTCAAAAGGGACCTTAGATTATTTTGAACCAATGAGAAATTGTAACCCAACACGA
1 ATGAGTGAAATTCCAAAGGGACATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGA
* * * * ** * * *
89575135 TAGGGCACAATTTCGCGAATTGCCAAATATCGAACATCGCCTTCG-CTTAAAGAATTTTTA-AAG
66 TAGGGCACGA-TTCCCGAATTGCCAAACATCGAAAATTACCTTCGTTTTAAAGAGTTTTTAGAAA
89575198 AC
130 AC
* * * * * * * * * *
89575200 ATGGGTGAAATTTCAAAGGAATATTCAATTGTTTTGAACGAACGGGAAATCGCAACCCAGCACGA
1 ATGAGTGAAATTCCAAAGGGACATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGA
* * ** *
89575265 TAGGGCACGATTCTCGAATTACCAAACATCGAGTATTACCTTTGTTTTAAAGAGTTTTTAGAAAA
66 TAGGGCACGATTCCCGAATTGCCAAACATCGAAAATTACCTTCGTTTTAAAGAGTTTTTAGAAAA
89575330 C
131 C
* * * *
89575331 ATGAATGAAGTTCCAAAGGGACATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGT
1 ATGAGTGAAATTCCAAAGGGACATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGA
* * ** *
89575396 TAGGGCACGATTCCGCGAATTGTCAAATATC-AAACATCGCCTTCGTTTTAAAGAATTTT
66 TAGGGCACGATTCC-CGAATTGCCAAACATCGAAA-ATTACCTTCGTTTTAAAGAGTTTT
89575455 CTTTAAAAAA
Statistics
Matches: 304, Mismatches: 74, Indels: 14
0.78 0.19 0.04
Matches are distributed among these distances:
129 26 0.09
130 75 0.25
131 82 0.27
132 118 0.39
133 3 0.01
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (131 bp):
ATGAGTGAAATTCCAAAGGGACATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGA
TAGGGCACGATTCCCGAATTGCCAAACATCGAAAATTACCTTCGTTTTAAAGAGTTTTTAGAAAA
C
Found at i:89576529 original size:12 final size:12
Alignment explanation
Indices: 89576512--89576537 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
89576502 TACTATAAAG
89576512 TACATATATATA
1 TACATATATATA
89576524 TACATATATATA
1 TACATATATATA
89576536 TA
1 TA
89576538 TATGGTAATG
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:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TACATATATATA
Found at i:89579645 original size:8 final size:8
Alignment explanation
Indices: 89579603--89579627 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
89579593 ATATAGACTA
89579603 AATAAAAT
1 AATAAAAT
89579611 AATAAAAT
1 AATAAAAT
89579619 AATAAAAT
1 AATAAAAT
89579627 A
1 A
89579628 TATTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:89579935 original size:30 final size:30
Alignment explanation
Indices: 89579881--89579949 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
89579871 CACCCTTAAA
* *
89579881 ATATTTGCACTATTAATCATTCAAAATTTTC
1 ATATTTACACTATTAATCACTC-AAATTTTC
* *
89579912 ATATTTACACT-TTAATCCCTCAAATTTTG
1 ATATTTACACTATTAATCACTCAAATTTTC
89579941 AGTATTTAC
1 A-TATTTAC
89579950 TATTGTGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.24
30 15 0.45
31 10 0.30
ACGTcount: A:0.33, C:0.17, G:0.04, T:0.45
Consensus pattern (30 bp):
ATATTTACACTATTAATCACTCAAATTTTC
Found at i:89585528 original size:411 final size:411
Alignment explanation
Indices: 89584766--89585999 Score: 2324
Period size: 411 Copynumber: 3.0 Consensus size: 411
89584756 TGTGATTAGT
*
89584766 GTAGATGGTACACTTCTCTCTATACAGATAATGTCTCAAAATCTTTAATGCAAAGACCACTGCAG
1 GTAGATGGTACACTTCTCTCCATACAGATAATGTCTCAAAATCTTTAATGCAAAGACCACTGCAG
*
89584831 CCAGCTCCAAATCATATGTCAAATAATTAGCCTCGTGAGTCTTAAGCTGTCGAGACGCATAAGCA
66 CCAGCTCCAAATCATACGTCAAATAATTAGCCTCGTGAGTCTTAAGCTGTCGAGACGCATAAGCA
*
89584896 ACTACTTACCGTCTTACATCAAGACGCAACCCAAACCCACATGTGACGCATCACTGTAAACCACG
131 ACTACTTACCGTCTTGCATCAAGACGCAACCCAAACCCACATGTGACGCATCACTGTAAACCACG
* *
89584961 AAGTCCTTACCAGGCTCAGGTTGTATCAGAACTGGAGCCTGAGCTGTTGATGTACGTAATAATTT
196 AAGTCCTTACCAGGCTCAGGCTGTATCAGAACTGGAGCCTGAGCTGTTGATGTACGTGATAATTT
*
89585026 TTATATTTATGATTGATCGTATTTGAAAGCTAACTATTATCACAATAAAGGCGAGCGCACCTATC
261 TTATATTTATGATTGATCGTATTTGAAAGCTAACTATTATCACAATAAAGGCAAGCGCACCTATC
89585091 AAATAGTAGTATAGCTTATAGCAAGACTGGAATGTCGAACCCACAGGAACTAAAAGTACTAGTAT
326 AAATAGTAGTATAGCTTATAGCAAGACTGGAATGTCGAACCCACAGGAACTAAAAGTACTAGTAT
89585156 TAACCTTCTTTTTATTATCTA
391 TAACCTTCTTTTTATTATCTA
*
89585177 GTAGATGGTACACTTCTCTCCATACAGATAATGTCTCAAAATCTTTGATGCAAAGACCACTGCAG
1 GTAGATGGTACACTTCTCTCCATACAGATAATGTCTCAAAATCTTTAATGCAAAGACCACTGCAG
* *
89585242 CCAACTCCAAATCATACGTCAAATAATTAGCCTCGTGAGTCTTAAGCTGTTGAGACGCATAAGCA
66 CCAGCTCCAAATCATACGTCAAATAATTAGCCTCGTGAGTCTTAAGCTGTCGAGACGCATAAGCA
*
89585307 ACTACTTACCATCTTGCATCAAGACGCAACCCAAACCCACATGTGACGCATCACTGTAAACCACG
131 ACTACTTACCGTCTTGCATCAAGACGCAACCCAAACCCACATGTGACGCATCACTGTAAACCACG
89585372 AAGTCCTTACCAGGCTCAGGCTGTATCAGAACTGGAGCCTGAGCTGTTGATGTACGTGATAATTT
196 AAGTCCTTACCAGGCTCAGGCTGTATCAGAACTGGAGCCTGAGCTGTTGATGTACGTGATAATTT
89585437 TTATATTTATGATTGATCGTATTTGAAAGCTAACTATTATCACAATAAAGGCAAGCGCACCTATC
261 TTATATTTATGATTGATCGTATTTGAAAGCTAACTATTATCACAATAAAGGCAAGCGCACCTATC
89585502 AAATAGTAGTATAGCTTATAGCAAGACTGGAATGTCGAACCCACAGGAACTAAAAGTACTAGTAT
326 AAATAGTAGTATAGCTTATAGCAAGACTGGAATGTCGAACCCACAGGAACTAAAAGTACTAGTAT
89585567 TAACCTTCTTTTTATTATCTA
391 TAACCTTCTTTTTATTATCTA
89585588 GTAGATGGTACACTTCTCTCCATACAGATAATGTCTCAAAATCTTTAATGCAAAGACCACTGCAG
1 GTAGATGGTACACTTCTCTCCATACAGATAATGTCTCAAAATCTTTAATGCAAAGACCACTGCAG
* *
89585653 CTAGCTCCAAATCAGACGTCAAATAATTAGCCTCGTGAGTCTTAAGCTGTCGAGACGCATAAGCA
66 CCAGCTCCAAATCATACGTCAAATAATTAGCCTCGTGAGTCTTAAGCTGTCGAGACGCATAAGCA
*
89585718 ACTACTTACCGTCTTGCATCAAGACGCAACCTAAACCCACATGTGACGCATCACTGTAAACCACG
131 ACTACTTACCGTCTTGCATCAAGACGCAACCCAAACCCACATGTGACGCATCACTGTAAACCACG
89585783 AAGTCCTTACCAGGCTCAGGCTGTATCAGAACTGGAGCCTGAGCTGTTGATGTACGTGATAATTT
196 AAGTCCTTACCAGGCTCAGGCTGTATCAGAACTGGAGCCTGAGCTGTTGATGTACGTGATAATTT
*
89585848 TTATATTTATGATTGATCGTACTTGAAAGCTAACTATTATCACAATAAAGGCAAGCGCACCTATC
261 TTATATTTATGATTGATCGTATTTGAAAGCTAACTATTATCACAATAAAGGCAAGCGCACCTATC
* *
89585913 GAATAGTAGTATAGCTTATAGCAAGACTGGAATGTCGATCCCACAGGAACTAAAAGTACTAGTAT
326 AAATAGTAGTATAGCTTATAGCAAGACTGGAATGTCGAACCCACAGGAACTAAAAGTACTAGTAT
89585978 TAACCTTCTTTTTATTATCTA
391 TAACCTTCTTTTTATTATCTA
89585999 G
1 G
89586000 CCTAAAAATA
Statistics
Matches: 803, Mismatches: 20, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
411 803 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (411 bp):
GTAGATGGTACACTTCTCTCCATACAGATAATGTCTCAAAATCTTTAATGCAAAGACCACTGCAG
CCAGCTCCAAATCATACGTCAAATAATTAGCCTCGTGAGTCTTAAGCTGTCGAGACGCATAAGCA
ACTACTTACCGTCTTGCATCAAGACGCAACCCAAACCCACATGTGACGCATCACTGTAAACCACG
AAGTCCTTACCAGGCTCAGGCTGTATCAGAACTGGAGCCTGAGCTGTTGATGTACGTGATAATTT
TTATATTTATGATTGATCGTATTTGAAAGCTAACTATTATCACAATAAAGGCAAGCGCACCTATC
AAATAGTAGTATAGCTTATAGCAAGACTGGAATGTCGAACCCACAGGAACTAAAAGTACTAGTAT
TAACCTTCTTTTTATTATCTA
Found at i:89589519 original size:14 final size:14
Alignment explanation
Indices: 89589502--89589540 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
89589492 TCAAAACAAG
89589502 AATTAAGAACACAT
1 AATTAAGAACACAT
89589516 AATTAAGAACACAT
1 AATTAAGAACACAT
89589530 AATTAAGAACA
1 AATTAAGAACA
89589541 AGTCAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.59, C:0.13, G:0.08, T:0.21
Consensus pattern (14 bp):
AATTAAGAACACAT
Found at i:89590398 original size:7 final size:7
Alignment explanation
Indices: 89590369--89590412 Score: 63
Period size: 7 Copynumber: 6.3 Consensus size: 7
89590359 TAAAAAGATA
89590369 AATAAAT
1 AATAAAT
*
89590376 ATATAAGT
1 A-ATAAAT
89590384 AA-AAAT
1 AATAAAT
89590390 AATAAAT
1 AATAAAT
89590397 AATAAAT
1 AATAAAT
89590404 AATAAAT
1 AATAAAT
89590411 AA
1 AA
89590413 AAGTCTTCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 5 0.15
7 22 0.67
8 6 0.18
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (7 bp):
AATAAAT
Found at i:89591928 original size:33 final size:33
Alignment explanation
Indices: 89591891--89591953 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
89591881 ATGCATATGG
89591891 GAATGATAATATGGAATATGGTGTGGGTAATGA
1 GAATGATAATATGGAATATGGTGTGGGTAATGA
89591924 GAATGATAATATGGAATATGGTGTGGGTAA
1 GAATGATAATATGGAATATGGTGTGGGTAA
89591954 GGCATGAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.37, C:0.00, G:0.33, T:0.30
Consensus pattern (33 bp):
GAATGATAATATGGAATATGGTGTGGGTAATGA
Found at i:89594882 original size:29 final size:30
Alignment explanation
Indices: 89594837--89594904 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
89594827 TAGCCCAAGA
* * *
89594837 GTAAATACTCAAAATTTGAGGGATTAA-AGT
1 GTAAATA-TAAAAATTTGAAGGACTAACAGT
89594867 GTAAATATAAAAATTTGAAGGACTAACAGT
1 GTAAATATAAAAATTTGAAGGACTAACAGT
*
89594897 GCAAATAT
1 GTAAATAT
89594905 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.07, G:0.18, T:0.28
Consensus pattern (30 bp):
GTAAATATAAAAATTTGAAGGACTAACAGT
Found at i:89600562 original size:27 final size:26
Alignment explanation
Indices: 89600525--89600639 Score: 115
Period size: 27 Copynumber: 4.3 Consensus size: 26
89600515 AGCATGGCTG
* *
89600525 CCAGAACAGATAATGTGATAGAGTCA
1 CCAGAACAGATAATGTGACAGAGCCA
*
89600551 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGACAGAGCCA
*
89600579 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCA
* * *
89600606 CCA-AATCAGATATTTGTGGCATAGCCA
1 CCAGAA-CAGATA-ATGTGACAGAGCCA
89600633 CCAGAAC
1 CCAGAAC
89600640 GCTTCCTCCA
Statistics
Matches: 79, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
26 7 0.09
27 54 0.68
28 18 0.23
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGACAGAGCCA
Found at i:89600584 original size:54 final size:54
Alignment explanation
Indices: 89600525--89600639 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 54
89600515 AGCATGGCTG
* * *
89600525 CCAGAACAGATA-ATGTGATAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAAAT-CAGATAATCGTGGCAGAGCCA
* * * *
89600579 CCAGAACAGATATATGTGGCAGAGCCACCAAATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAAATCAGATAATCGTGGCAGAGCCA
89600633 CCAGAAC
1 CCAGAAC
89600640 GCTTCCTCCA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
54 37 0.70
55 16 0.30
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAAATCAGATAATCGTGGCAGAGCCA
Found at i:89602293 original size:26 final size:26
Alignment explanation
Indices: 89602257--89602366 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
89602247 CATGAAATTC
*
89602257 TTATCATGAAACATTTACTTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
89602283 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
89602309 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
89602335 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
89602361 TTATCA
1 TTATCA
89602367 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:89602377 original size:10 final size:10
Alignment explanation
Indices: 89602362--89602393 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
89602352 CCTAACCTAT
89602362 TATCAATTTG
1 TATCAATTTG
89602372 TATCAATTTG
1 TATCAATTTG
*
89602382 TATTAATTTG
1 TATCAATTTG
89602392 TA
1 TA
89602394 CCATAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.31, C:0.06, G:0.09, T:0.53
Consensus pattern (10 bp):
TATCAATTTG
Found at i:89611016 original size:33 final size:33
Alignment explanation
Indices: 89610979--89611101 Score: 101
Period size: 33 Copynumber: 3.7 Consensus size: 33
89610969 AATATATGTT
*
89610979 TAAGACCATAGCTAGGCTATGGCATCC-TGA-TG
1 TAAGACCATAGCTAGGCTATGGCA-CCACGAGTG
* * *
89611011 ATAAGACCATATCTGGGATATGGCACCACGAGTG
1 -TAAGACCATAGCTAGGCTATGGCACCACGAGTG
* * **
89611045 TAAGACCATGGCTAGGCCATGGCAATAC-ACGTG
1 TAAGACCATAGCTAGGCTATGGCACCACGA-GTG
*
89611078 TAAGACCATAG-TTGGACTATGGCA
1 TAAGACCATAGCTAGG-CTATGGCA
89611102 TCATACCAGA
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
32 6 0.08
33 64 0.89
34 2 0.03
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (33 bp):
TAAGACCATAGCTAGGCTATGGCACCACGAGTG
Found at i:89611164 original size:45 final size:45
Alignment explanation
Indices: 89611115--89611226 Score: 152
Period size: 45 Copynumber: 2.5 Consensus size: 45
89611105 TACCAGAAAT
*
89611115 GAGTAAGACCATAGTTGAAAGACGCTATGGCATCACGATTCAAAC
1 GAGTAAGACCATAGTTGAAAGACGCTATGACATCACGATTCAAAC
* * * *
89611160 GAGTAAGACCATAGCTGAAAGATGCTATGACATCGCGATTCAAAT
1 GAGTAAGACCATAGTTGAAAGACGCTATGACATCACGATTCAAAC
* * *
89611205 GTGTAAAACCATGGTTGAAAGA
1 GAGTAAGACCATAGTTGAAAGA
89611227 TACCATGGCA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (45 bp):
GAGTAAGACCATAGTTGAAAGACGCTATGACATCACGATTCAAAC
Found at i:89611227 original size:45 final size:46
Alignment explanation
Indices: 89611111--89611375 Score: 264
Period size: 46 Copynumber: 5.8 Consensus size: 46
89611101 ATCATACCAG
* * ** * *
89611111 AAATGAGTAAGACCATAGTTGAAAGACGCTATGGCATCACGAT-TC
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACACGATATC
* * * * * * * * *
89611156 AAACGAGTAAGACCATAGCTGAAAGATGCTATGACATCGCGAT-TC
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACACGATATC
* * *
89611201 AAATGTGTAAAACCATGGTTGAAAGATACCATGGCAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACACGATATC
* * *
89611247 AAATGTGTAAGACCGTGGTTGAAAGATACCATGGCAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACACGATATC
* * * *
89611293 AAATGTGTAAGACCATGGTTGAAAGATACCATGGAAACATGACATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACACGATATC
***
89611339 AAATAAATAAGACCATGGTTGAAAGATACCATGGCAA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
89611376 TATGACGGGG
Statistics
Matches: 193, Mismatches: 26, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
45 72 0.37
46 121 0.63
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACACGATATC
Found at i:89611266 original size:46 final size:46
Alignment explanation
Indices: 89611201--89611447 Score: 298
Period size: 46 Copynumber: 5.3 Consensus size: 46
89611191 ATCGCGATTC
*
89611201 AAATGTGTAAAACCATGGTTGAAAGATACCATGGCAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
*
89611247 AAATGTGTAAGACCGTGGTTGAAAGATACCATGGCAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
* *
89611293 AAATGTGTAAGACCATGGTTGAAAGATACCATGGAAACATGACATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
*** * ***
89611339 AAATAAATAAGACCATGGTTGAAAGATACCATGGCAATATGACGGGG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGA-TATG
*** * * * *
89611386 AAATACATAAGACCATGGGTGAAAGATACTATGGCAACCTGACA-G
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
*
89611431 AAAATGAGTAAGACCAT
1 -AAATGTGTAAGACCAT
89611448 ATTTGAAACA
Statistics
Matches: 176, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
45 1 0.01
46 137 0.78
47 38 0.22
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
Found at i:89614223 original size:29 final size:31
Alignment explanation
Indices: 89614174--89614238 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 31
89614164 TTTTATAGTT
*
89614174 TTTTAATTAGATAATTATTATT-TATTTAATA
1 TTTTAATAAGATAATTATTATTAT-TTTAATA
*
89614205 TTTTAATAAGAT-ATT-TTATTATTTTATTA
1 TTTTAATAAGATAATTATTATTATTTTAATA
89614234 TTTTA
1 TTTTA
89614239 TTTAGTCTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 16 0.52
30 4 0.13
31 11 0.35
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (31 bp):
TTTTAATAAGATAATTATTATTATTTTAATA
Found at i:89614227 original size:8 final size:8
Alignment explanation
Indices: 89614216--89614240 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
89614206 TTTAATAAGA
89614216 TATTTTAT
1 TATTTTAT
89614224 TATTTTAT
1 TATTTTAT
89614232 TATTTTAT
1 TATTTTAT
89614240 T
1 T
89614241 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:89617938 original size:14 final size:14
Alignment explanation
Indices: 89617921--89617948 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
89617911 TTAAAGTAAG
89617921 AATTAAGAACACAT
1 AATTAAGAACACAT
89617935 AATTAAGAACACAT
1 AATTAAGAACACAT
89617949 CAAGTATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.14, G:0.07, T:0.21
Consensus pattern (14 bp):
AATTAAGAACACAT
Found at i:89624898 original size:40 final size:38
Alignment explanation
Indices: 89624806--89624902 Score: 95
Period size: 40 Copynumber: 2.5 Consensus size: 38
89624796 ACCATCTCCG
* *
89624806 TCCAACCCAACACACCCTGTGGGGATAAAATCAACCAA
1 TCCAACCCAACACACCATATGGGGATAAAATCAACCAA
* * ** * * *
89624844 CCCATCCCTGCACACCGTATATGGGGATATAATCGACCCA
1 TCCAACCCAACACACC--ATATGGGGATAAAATCAACCAA
89624884 TCCAACCCAACACACCATA
1 TCCAACCCAACACACCATA
89624903 AAATACCACA
Statistics
Matches: 44, Mismatches: 13, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
38 15 0.34
40 29 0.66
ACGTcount: A:0.35, C:0.37, G:0.12, T:0.15
Consensus pattern (38 bp):
TCCAACCCAACACACCATATGGGGATAAAATCAACCAA
Found at i:89626266 original size:15 final size:15
Alignment explanation
Indices: 89626246--89626276 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
89626236 ACCTAAAGTC
89626246 AGGCTTTACTCAAAT
1 AGGCTTTACTCAAAT
89626261 AGGCTTTACTCAAAT
1 AGGCTTTACTCAAAT
89626276 A
1 A
89626277 AAACCAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (15 bp):
AGGCTTTACTCAAAT
Found at i:89633447 original size:34 final size:34
Alignment explanation
Indices: 89633399--89633467 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
89633389 TAAAACTTGA
89633399 ACTTAGGACCTCCCAAACACACCCCAAAGCACAT
1 ACTTAGGACCTCCCAAACACACCCCAAAGCACAT
*
89633433 ACTTGGGACCTCCCAAACACACCCCAAAGCACAT
1 ACTTAGGACCTCCCAAACACACCCCAAAGCACAT
89633467 A
1 A
89633468 ACCTCTTAAA
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:0.38, C:0.41, G:0.10, T:0.12
Consensus pattern (34 bp):
ACTTAGGACCTCCCAAACACACCCCAAAGCACAT
Found at i:89639031 original size:29 final size:29
Alignment explanation
Indices: 89638994--89639075 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 29
89638984 TAGAATTTTT
* * * *
89638994 AATTGTAAAAAATAATAGAATTTATTAGA
1 AATTATAAAAAATAATAAAAATTATCAGA
* *
89639023 AATTATAAAATATTATAAAAATTATCAGA
1 AATTATAAAAAATAATAAAAATTATCAGA
* * *
89639052 AATCATAAAAAATTATTAAAATTA
1 AATTATAAAAAATAATAAAAATTA
89639076 AAAAAAGTAA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (29 bp):
AATTATAAAAAATAATAAAAATTATCAGA
Found at i:89639044 original size:19 final size:18
Alignment explanation
Indices: 89639022--89639073 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 18
89639012 AATTTATTAG
89639022 AAATTATAAAAT-ATTATAA
1 AAATTATAAAATCA-TA-AA
89639041 AAATTATCAGAAATCATAAA
1 AAATTAT-A-AAATCATAAA
89639061 AAATTATTAAAAT
1 AAATTA-TAAAAT
89639074 TAAAAAAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 11 0.38
20 10 0.34
21 7 0.24
22 1 0.03
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (18 bp):
AAATTATAAAATCATAAA
Found at i:89642135 original size:30 final size:29
Alignment explanation
Indices: 89642101--89642158 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
89642091 TAACTTAAAT
* *
89642101 AAATAACTAATAACATATTAATAATTTTAA
1 AAATAAATAATAACAAATTAAT-ATTTTAA
* *
89642131 AAATAAATAATTATAAATTAATATTTTA
1 AAATAAATAATAACAAATTAATATTTTA
89642159 TGACATTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 6 0.25
30 18 0.75
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (29 bp):
AAATAAATAATAACAAATTAATATTTTAA
Found at i:89646215 original size:22 final size:24
Alignment explanation
Indices: 89646172--89646237 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 24
89646162 TTTTCTCATG
89646172 TATTATTTATTTTAAATTGTTTTAT
1 TATTATTTATTTTAAA-TGTTTTAT
* * *
89646197 TATTGTTTATTTTAAGT-TTTTCACA
1 TATTATTTATTTTAAATGTTTT-A-T
*
89646222 TATTATATATTTTAAA
1 TATTATTTATTTTAAA
89646238 CTAATTCAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
23 4 0.12
24 2 0.06
25 27 0.82
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (24 bp):
TATTATTTATTTTAAATGTTTTAT
Done.