Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 121 of 153
Found at i:37921953 original size:29 final size:29
Alignment explanation
Indices: 37921864--37921956 Score: 86
Period size: 29 Copynumber: 3.3 Consensus size: 29
37921854 TTTAATTAGA
37921864 TTTTTTATA-TTTTATAATATTTATA-AC
1 TTTTTTATATTTTTATAATATTTATATAC
* *
37921891 TTTTTTATAATTTTAATAA-GTTTATATTA-
1 TTTTTTAT-ATTTTTATAATATTTATA-TAC
* * * *
37921920 ATTTTTATATTTTTATAATTTTTTTATGC
1 TTTTTTATATTTTTATAATATTTATATAC
37921949 TTTTTTAT
1 TTTTTTAT
37921957 GAGAAAAAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
27 8 0.15
28 17 0.33
29 26 0.50
30 1 0.02
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (29 bp):
TTTTTTATATTTTTATAATATTTATATAC
Found at i:37925382 original size:122 final size:122
Alignment explanation
Indices: 37925219--37925462 Score: 461
Period size: 122 Copynumber: 2.0 Consensus size: 122
37925209 GAGGATATTA
37925219 ATACATTGCAGTAAGGAAACACATACATTAACTAAAGCATCTTACATGTACATCAGTAAACAAGC
1 ATACATTGCAGTAAGGAAACACATACATTAACTAAAGCATCTTACATGTACATCAGTAAACAAGC
*
37925284 AGCTAAGATACATGCCTGATAATGAGCACTTCTATCAAAGACACTAATAGTGATAAG
66 AGCTAAGATACATGCCTGATAATGAGCACTTCTAGCAAAGACACTAATAGTGATAAG
* *
37925341 ATACATTGCAGTAAGGAAACATATACATTAACTAAAGCATCTTACATGTACATCGGTAAACAAGC
1 ATACATTGCAGTAAGGAAACACATACATTAACTAAAGCATCTTACATGTACATCAGTAAACAAGC
37925406 AGCTAAGATACATGCCTGATAATGAGCACTTCTAGCAAAGACACTAATAGTGATAAG
66 AGCTAAGATACATGCCTGATAATGAGCACTTCTAGCAAAGACACTAATAGTGATAAG
37925463 TGCCAGAGAT
Statistics
Matches: 119, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
122 119 1.00
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.24
Consensus pattern (122 bp):
ATACATTGCAGTAAGGAAACACATACATTAACTAAAGCATCTTACATGTACATCAGTAAACAAGC
AGCTAAGATACATGCCTGATAATGAGCACTTCTAGCAAAGACACTAATAGTGATAAG
Found at i:37933743 original size:16 final size:15
Alignment explanation
Indices: 37933716--37933749 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
37933706 ATAACTAGTA
*
37933716 TATAATTATATTTAT
1 TATAATTATATTAAT
37933731 TATAATATATATTAAT
1 TATAAT-TATATTAAT
37933747 TAT
1 TAT
37933750 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:37948833 original size:14 final size:14
Alignment explanation
Indices: 37948823--37948849 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
37948813 AAATTTTTTT
37948823 ACTTAGTTTTTAAC
1 ACTTAGTTTTTAAC
37948837 ACTTAGTTTTTAA
1 ACTTAGTTTTTAA
37948850 TCATCTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.52
Consensus pattern (14 bp):
ACTTAGTTTTTAAC
Found at i:37983680 original size:28 final size:27
Alignment explanation
Indices: 37983649--37983736 Score: 104
Period size: 28 Copynumber: 3.1 Consensus size: 27
37983639 CATGCAATAG
* * *
37983649 CAGTCTGGGCCTGAGCCCTATACAGCAA
1 CAGTGTGGGCCT-AGCCCAATACAGTAA
*
37983677 CAGTGTAGGCCTTAGCCCAATACAGTAA
1 CAGTGTGGGCC-TAGCCCAATACAGTAA
*
37983705 TAGTGTGGGCCATAGCCCAATACAGTAA
1 CAGTGTGGGCC-TAGCCCAATACAGTAA
37983733 CAGT
1 CAGT
37983737 ACAATGCAGT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
28 50 0.98
29 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.24, T:0.20
Consensus pattern (27 bp):
CAGTGTGGGCCTAGCCCAATACAGTAA
Found at i:37986007 original size:27 final size:27
Alignment explanation
Indices: 37985976--37986153 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
37985966 TAAATTGTAC
37985976 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
37986003 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37986029 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
37986057 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
37986085 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37986112 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
37986139 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
37986154 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:37986090 original size:82 final size:81
Alignment explanation
Indices: 37985977--37986132 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
37985967 AAATTGTACA
* *
37985977 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
37986041 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
37986058 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
37986123 TGCGAGTTGA
65 TGCGAATTGA
37986133 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:37986144 original size:82 final size:81
Alignment explanation
Indices: 37985973--37986153 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
37985963 GATTAAATTG
* *
37985973 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
37986038 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
37986054 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
37986118 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
37986136 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
37986154 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:37993616 original size:27 final size:27
Alignment explanation
Indices: 37993585--37993762 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
37993575 TAAATTGTAC
37993585 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
37993612 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37993638 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
37993666 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
37993694 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37993721 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
37993748 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
37993763 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:37993699 original size:82 final size:81
Alignment explanation
Indices: 37993586--37993741 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
37993576 AAATTGTACA
* *
37993586 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
37993650 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
37993667 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
37993732 TGCGAGTTGA
65 TGCGAATTGA
37993742 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:37993753 original size:82 final size:81
Alignment explanation
Indices: 37993582--37993762 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
37993572 GATTAAATTG
* *
37993582 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
37993647 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
37993663 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
37993727 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
37993745 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
37993763 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:37995147 original size:27 final size:27
Alignment explanation
Indices: 37995117--37995338 Score: 329
Period size: 27 Copynumber: 8.2 Consensus size: 27
37995107 GTTACAGATA
*
37995117 ATTTTACCCTTCGAGGGTATTTTGGTC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
37995144 ATTTTACCCTTCGAGGGTATTTCGGTC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
* * *
37995171 ATTTTATCATTCCAGGGTATTTCGGTC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
* **
37995198 ATTTTACCCTTTG-GGGCTATTTTAGTC
1 ATTTTACCCTTCGAGGG-TATTTCGGTC
*
37995225 ATTTTAACCTTCGAGGGTATTTCGGTC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
*
37995252 ATTTTACCCTTCGAGGGTATTTCGATC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
**
37995279 ATTTTACCCTTCGAGGGTATTTCAATC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
37995306 ATTTTACCCTTCGAGGGTATTTCGGTC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
37995333 ATTTTA
1 ATTTTA
37995339 GGCTCATTAC
Statistics
Matches: 174, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
26 3 0.02
27 168 0.97
28 3 0.02
ACGTcount: A:0.18, C:0.20, G:0.19, T:0.43
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGGTC
Found at i:38007889 original size:15 final size:16
Alignment explanation
Indices: 38007871--38007907 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
38007861 TTATTATGAG
38007871 ACTTACAACT-ATGTC
1 ACTTACAACTAATGTC
*
38007886 ACTTA-AACTAATTTC
1 ACTTACAACTAATGTC
38007901 ACTTACA
1 ACTTACA
38007908 CTCAATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 4 0.21
15 14 0.74
16 1 0.05
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.35
Consensus pattern (16 bp):
ACTTACAACTAATGTC
Found at i:38012082 original size:17 final size:17
Alignment explanation
Indices: 38012062--38012111 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
38012052 TTTAAATTTT
38012062 TATAAATTTTTAAAATA
1 TATAAATTTTTAAAATA
* * *
38012079 TATAAATTTTGAAATTT
1 TATAAATTTTTAAAATA
38012096 TA-AAATTATTTAAAAT
1 TATAAATT-TTTAAAAT
38012112 TATTTTGATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 5 0.19
17 22 0.81
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (17 bp):
TATAAATTTTTAAAATA
Found at i:38012779 original size:16 final size:16
Alignment explanation
Indices: 38012758--38012797 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
38012748 GCCTAAGAGA
38012758 AAATTGGGCTGGATTT
1 AAATTGGGCTGGATTT
*
38012774 AAATTGGGCTGGGTTT
1 AAATTGGGCTGGATTT
38012790 AAATTGGG
1 AAATTGGG
38012798 AAGGAGTAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.25, C:0.05, G:0.35, T:0.35
Consensus pattern (16 bp):
AAATTGGGCTGGATTT
Found at i:38028085 original size:21 final size:21
Alignment explanation
Indices: 38028059--38028099 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
38028049 ATCTGCTCAA
* *
38028059 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
38028080 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
38028100 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:38031530 original size:25 final size:24
Alignment explanation
Indices: 38031478--38031531 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
38031468 TTCTTTATAA
*
38031478 ACTTTAATTACGAATTCTATAAAT
1 ACTTTAATTACGAATTCTATAAAG
* * *
38031502 ACTTTAAATTAGGAATTCTATTAGG
1 ACTTT-AATTACGAATTCTATAAAG
38031527 ACTTT
1 ACTTT
38031532 CTCTTTGTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (24 bp):
ACTTTAATTACGAATTCTATAAAG
Found at i:38032841 original size:19 final size:20
Alignment explanation
Indices: 38032810--38032847 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
38032800 CATATAAAAG
38032810 AATATGAATAAATA-AATAT
1 AATATGAATAAATAGAATAT
38032829 AATATG-ATAAAATAGAATA
1 AATATGAAT-AAATAGAATA
38032848 GATGTATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 2 0.12
19 11 0.65
20 4 0.24
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (20 bp):
AATATGAATAAATAGAATAT
Found at i:38032979 original size:12 final size:12
Alignment explanation
Indices: 38032964--38032989 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38032954 TAAAAAGGAA
38032964 AATAATAATAGT
1 AATAATAATAGT
38032976 AATAATAATAGT
1 AATAATAATAGT
38032988 AA
1 AA
38032990 ATTAATTAAT
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:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (12 bp):
AATAATAATAGT
Found at i:38034347 original size:13 final size:11
Alignment explanation
Indices: 38034322--38034361 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
38034312 TGTTTCAGAA
38034322 TATTTTATAAT
1 TATTTTATAAT
38034333 TATTTTATTTAAT
1 TATTTTA--TAAT
38034346 TATTTTATAAT
1 TATTTTATAAT
38034357 TATTT
1 TATTT
38034362 ATTATAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 16 0.59
13 11 0.41
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TATTTTATAAT
Found at i:38034350 original size:24 final size:24
Alignment explanation
Indices: 38034322--38034369 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
38034312 TGTTTCAGAA
38034322 TATTTTATAATTATTTTATT-TAAT
1 TATTTTATAATTA-TTTATTATAAT
38034346 TATTTTATAATTATTTATTATAAT
1 TATTTTATAATTATTTATTATAAT
38034370 AAATTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 6 0.26
24 17 0.74
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (24 bp):
TATTTTATAATTATTTATTATAAT
Found at i:38034366 original size:13 final size:13
Alignment explanation
Indices: 38034326--38034379 Score: 60
Period size: 13 Copynumber: 4.3 Consensus size: 13
38034316 TCAGAATATT
38034326 TTATAATTATTTTA
1 TTATAATTA-TTTA
38034340 TT-TAATTA-TT-
1 TTATAATTATTTA
38034350 TTATAATTATTTA
1 TTATAATTATTTA
* *
38034363 TTATAATAAATTA
1 TTATAATTATTTA
38034376 TTAT
1 TTAT
38034380 TAAGGATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
10 2 0.06
11 8 0.23
12 2 0.06
13 21 0.60
14 2 0.06
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TTATAATTATTTA
Found at i:38034441 original size:15 final size:16
Alignment explanation
Indices: 38034418--38034486 Score: 70
Period size: 17 Copynumber: 4.2 Consensus size: 16
38034408 AATAAATAAT
*
38034418 TATTTAAAATTATTTA
1 TATTAAAAATTATTTA
*
38034434 TATTAAAAATTAAATTA
1 TATTAAAAATT-ATTTA
38034451 T-TT-AAAATTACTTTA
1 TATTAAAAATTA-TTTA
*
38034466 TATTAAACAATAATTTA
1 TATTAAA-AATTATTTA
38034483 TATT
1 TATT
38034487 TTATTTATGA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
14 1 0.02
15 10 0.23
16 14 0.32
17 15 0.34
18 4 0.09
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (16 bp):
TATTAAAAATTATTTA
Found at i:38034551 original size:28 final size:27
Alignment explanation
Indices: 38034520--38034572 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
38034510 TATATTATTA
*
38034520 AATTATTTTATAAAAATAAAATTTATAT
1 AATT-TTTTATAAAAACAAAATTTATAT
* *
38034548 AATTTTTTTTAATAACAAAATTTAT
1 AATTTTTTATAAAAACAAAATTTAT
38034573 TTGTATTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (27 bp):
AATTTTTTATAAAAACAAAATTTATAT
Found at i:38036329 original size:58 final size:58
Alignment explanation
Indices: 38036264--38036377 Score: 210
Period size: 58 Copynumber: 2.0 Consensus size: 58
38036254 TGATACTTGA
*
38036264 TTTCATTTGGATTAAATAAGAATTACTTTATTTCCTTTCCAAATTCATGCGTCAATGG
1 TTTCATTTGGATTAAATAAGAATTACTTTATTTCCTTTCCAAATTCATGCATCAATGG
*
38036322 TTTCATTTGGATTAAATAAGAATTATTTTATTTCCTTTCCAAATTCATGCATCAAT
1 TTTCATTTGGATTAAATAAGAATTACTTTATTTCCTTTCCAAATTCATGCATCAAT
38036378 AGCTATTGCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.45
Consensus pattern (58 bp):
TTTCATTTGGATTAAATAAGAATTACTTTATTTCCTTTCCAAATTCATGCATCAATGG
Found at i:38037089 original size:17 final size:16
Alignment explanation
Indices: 38037067--38037108 Score: 66
Period size: 17 Copynumber: 2.6 Consensus size: 16
38037057 ACAAATTTTG
38037067 AATTTAATTTCCAATT
1 AATTTAATTTCCAATT
38037083 CAATTTAATTTCCAATT
1 -AATTTAATTTCCAATT
*
38037100 TATTTAATT
1 AATTTAATT
38037109 ATTTATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (16 bp):
AATTTAATTTCCAATT
Found at i:38043337 original size:16 final size:17
Alignment explanation
Indices: 38043316--38043347 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
38043306 AAATATGCAA
38043316 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
38043332 TCACATAACTTCATAT
1 TCACATAACTTCATAT
38043348 CAACAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:38043574 original size:43 final size:43
Alignment explanation
Indices: 38043508--38043678 Score: 181
Period size: 43 Copynumber: 4.0 Consensus size: 43
38043498 GACTCGTACA
* *
38043508 ATGCCAACGTCCCAGAC-GTGGTCTTACATGTAATCACATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACATGAAATCACATATCG
* * * *
38043551 ATGCCACTGTCCTAGACAGGGTCTTACA-CAAATCAAATA-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACATGAAATCACATATCG
* *
38043592 ATGCCAATGTCCCAGACATGGTCTTACATGAAAACACA-AGTCG
1 ATGCCAATGTCCCAGACAGGGTCTTACATGAAATCACATA-TCG
* * *
38043635 ATGCCAATGTCCCAGAC-GTGGTCTTACACGAAAACACGTATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACATGAAATCACATATCG
38043678 A
1 A
38043679 AATCCTATGT
Statistics
Matches: 107, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
41 28 0.26
42 14 0.13
43 63 0.59
44 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACATGAAATCACATATCG
Found at i:38043658 original size:84 final size:84
Alignment explanation
Indices: 38043508--38043663 Score: 226
Period size: 84 Copynumber: 1.9 Consensus size: 84
38043498 GACTCGTACA
* * * * *
38043508 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCTAGACAGGGT
1 ATGCCAACGTCCCAGACATGGTCTTACATGAAAACACATATCGATGCCAATGTCCCAGACAGGGT
38043573 CTTACACAAATCAAATACG
66 CTTACACAAATCAAATACG
*
38043592 ATGCCAATGTCCCAGACATGGTCTTACATGAAAACACA-AGTCGATGCCAATGTCCCAGAC-GTG
1 ATGCCAACGTCCCAGACATGGTCTTACATGAAAACACATA-TCGATGCCAATGTCCCAGACAG-G
38043655 GTCTTACAC
64 GTCTTACAC
38043664 GAAAACACGT
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
83 2 0.03
84 62 0.97
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.23
Consensus pattern (84 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGAAAACACATATCGATGCCAATGTCCCAGACAGGGT
CTTACACAAATCAAATACG
Found at i:38046512 original size:10 final size:10
Alignment explanation
Indices: 38046499--38046526 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
38046489 CCAAGAGGAG
38046499 AAAAGAAAAA
1 AAAAGAAAAA
38046509 AAAAGAAAAA
1 AAAAGAAAAA
38046519 AAAAGAAA
1 AAAAGAAA
38046527 TGGGGTCGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:38049143 original size:17 final size:17
Alignment explanation
Indices: 38049112--38049153 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
38049102 TTGCTATTTC
*
38049112 ATAAAT-AAATTAATTA
1 ATAAATAAAATAAATTA
*
38049128 ATTAATAAAATAAATTA
1 ATAAATAAAATAAATTA
38049145 ATAAATAAA
1 ATAAATAAA
38049154 GGCTCAAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATAAATAAAATAAATTA
Found at i:38051976 original size:20 final size:18
Alignment explanation
Indices: 38051945--38051991 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 18
38051935 TCATTTTTAC
38051945 AATTTTTATTATTTTATATAA
1 AATTTTT-TTATTTT-TA-AA
*
38051966 AATTTTTTTATTTTTAAT
1 AATTTTTTTATTTTTAAA
38051984 AATTTTTT
1 AATTTTTT
38051992 GTAGTTTGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 9 0.36
19 2 0.08
20 7 0.28
21 7 0.28
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
AATTTTTTTATTTTTAAA
Found at i:38051980 original size:21 final size:20
Alignment explanation
Indices: 38051945--38051985 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
38051935 TCATTTTTAC
38051945 AATTTTTATTATTTTATATAA
1 AATTTTTATTATTTTA-ATAA
38051966 AATTTTT-TTATTTTTAATAA
1 AATTTTTATTA-TTTTAATAA
38051986 TTTTTTGTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
AATTTTTATTATTTTAATAA
Found at i:38052003 original size:20 final size:18
Alignment explanation
Indices: 38051966--38052010 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
38051956 TTTTATATAA
*
38051966 AATTTTTTTATTTTTAAT
1 AATTTTTTTATTTGTAAT
38051984 AATTTTTTGTAGTTTGTAAT
1 AATTTTTT-TA-TTTGTAAT
*
38052004 TATTTTT
1 AATTTTT
38052011 ATAATATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 8 0.35
19 2 0.09
20 13 0.57
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (18 bp):
AATTTTTTTATTTGTAAT
Found at i:38052897 original size:16 final size:17
Alignment explanation
Indices: 38052856--38052897 Score: 56
Period size: 15 Copynumber: 2.7 Consensus size: 17
38052846 AAAAAATGTG
38052856 TTAAAT-TAT-TAAATA
1 TTAAATATATATAAATA
38052871 TTAAATA-ATATAAATA
1 TTAAATATATATAAATA
38052887 -TAAATATATAT
1 TTAAATATATAT
38052898 TTTAAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 14 0.58
16 10 0.42
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAAATATATATAAATA
Found at i:38058461 original size:62 final size:57
Alignment explanation
Indices: 38058385--38058532 Score: 172
Period size: 57 Copynumber: 2.5 Consensus size: 57
38058375 AATTGATGGT
*
38058385 AAAAAGGATCTAGCCCGGATGGGTGATCCTATCCTAATATAGCCCTCCCGAAGAATATGTGTG
1 AAAAA-GATCTAGCCCGGACGGGTGATCC--T--TAATATAGCCCTCCCGAAGAATATGTG-G
* *
38058448 AAAAAGATCTAGCCCGGACGAGTGAT-CTTGATATAGCCCTCCCGAAGAATATGTGG
1 AAAAAGATCTAGCCCGGACGGGTGATCCTTAATATAGCCCTCCCGAAGAATATGTGG
* * *
38058504 AAAATGGATTTAGCCCGGACGGGTAATCC
1 AAAA-AGATCTAGCCCGGACGGGTGATCC
38058533 GAATTAGGGT
Statistics
Matches: 76, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
56 5 0.07
57 44 0.58
58 1 0.01
59 1 0.01
61 1 0.01
62 19 0.25
63 5 0.07
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (57 bp):
AAAAAGATCTAGCCCGGACGGGTGATCCTTAATATAGCCCTCCCGAAGAATATGTGG
Found at i:38058692 original size:67 final size:67
Alignment explanation
Indices: 38058597--38058731 Score: 216
Period size: 67 Copynumber: 2.0 Consensus size: 67
38058587 GTAATTGTCA
* * *
38058597 TTGCAGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGAGAGTGTGCTC
1 TTGCAAGGGATTTAGCCTGGACTGGTAATCCAGCTGTAAGAAATGAAGTTCGCGAGAGTGTGCTC
38058662 TC
66 TC
* * *
38058664 TTGCAAGGGATTTAGCCTGGACTGGTAATCCAGTTGTAAGAAATGAAGTTTGCGGGAGTGTGCTC
1 TTGCAAGGGATTTAGCCTGGACTGGTAATCCAGCTGTAAGAAATGAAGTTCGCGAGAGTGTGCTC
38058729 TC
66 TC
38058731 T
1 T
38058732 AAATTGGAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (67 bp):
TTGCAAGGGATTTAGCCTGGACTGGTAATCCAGCTGTAAGAAATGAAGTTCGCGAGAGTGTGCTC
TC
Found at i:38061192 original size:37 final size:35
Alignment explanation
Indices: 38061151--38061232 Score: 146
Period size: 37 Copynumber: 2.3 Consensus size: 35
38061141 ATGAAATTCC
38061151 TGAGTCAATTGTTTTTGATCAGGACAAAATTTTCTT
1 TGAGTCAATTGTTTTTGATCAGGACAAAATTTTC-T
38061187 ATGAGTCAATTGTTTTTGATCAGGACAAAATTTTCT
1 -TGAGTCAATTGTTTTTGATCAGGACAAAATTTTCT
38061223 TGAGTCAATT
1 TGAGTCAATT
38061233 TTGGCAGGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
35 10 0.22
36 1 0.02
37 34 0.76
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.43
Consensus pattern (35 bp):
TGAGTCAATTGTTTTTGATCAGGACAAAATTTTCT
Found at i:38061218 original size:21 final size:21
Alignment explanation
Indices: 38061157--38061218 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
38061147 TTCCTGAGTC
38061157 AATTGTTTTTGATCAGGACAA
1 AATTGTTTTTGATCAGGACAA
* * *
38061178 AATT-TTCTT-ATGA-GTC--
1 AATTGTTTTTGATCAGGACAA
38061194 AATTGTTTTTGATCAGGACAA
1 AATTGTTTTTGATCAGGACAA
38061215 AATT
1 AATT
38061219 TTCTTGAGTC
Statistics
Matches: 30, Mismatches: 6, Indels: 10
0.65 0.13 0.22
Matches are distributed among these distances:
16 4 0.13
17 4 0.13
18 5 0.17
19 5 0.17
20 4 0.13
21 8 0.27
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (21 bp):
AATTGTTTTTGATCAGGACAA
Found at i:38071352 original size:17 final size:17
Alignment explanation
Indices: 38071332--38071380 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
38071322 TAACTTATAT
38071332 TTTTTTATATTTTCCTA
1 TTTTTTATATTTTCCTA
*
38071349 -TTTTTATAGTTTTTCTA
1 TTTTTTATA-TTTTCCTA
38071366 TTTTTATAATATTTT
1 TTTTT-T-ATATTTT
38071381 AATAATATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 8 0.30
17 7 0.26
18 4 0.15
19 5 0.19
20 3 0.11
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.71
Consensus pattern (17 bp):
TTTTTTATATTTTCCTA
Found at i:38071414 original size:21 final size:21
Alignment explanation
Indices: 38071371--38071415 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
38071361 TTCTATTTTT
* *
38071371 ATAATATTTTAATAATATATA
1 ATAATATTTTAAAAAAATATA
* *
38071392 ATAATTTTTTAAAAAAATTTA
1 ATAATATTTTAAAAAAATATA
38071413 ATA
1 ATA
38071416 GAAAATTAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATAATATTTTAAAAAAATATA
Found at i:38079442 original size:21 final size:22
Alignment explanation
Indices: 38079400--38079453 Score: 92
Period size: 21 Copynumber: 2.5 Consensus size: 22
38079390 TGCACTAATG
38079400 AACAGAGAGCACTAAAGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
*
38079422 AACAGAGAGCAC-AATGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
38079443 AACAGAGAGCA
1 AACAGAGAGCA
38079454 GTGACATGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 19 0.61
22 12 0.39
ACGTcount: A:0.46, C:0.19, G:0.24, T:0.11
Consensus pattern (22 bp):
AACAGAGAGCACTAAAGTGCTA
Found at i:38080448 original size:5 final size:5
Alignment explanation
Indices: 38080440--38080484 Score: 90
Period size: 5 Copynumber: 9.0 Consensus size: 5
38080430 TTCCTTTCTT
38080440 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
38080485 AAATATCTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:38082135 original size:7 final size:7
Alignment explanation
Indices: 38082125--38082157 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
38082115 ACAAAAAGAT
38082125 AAAAATA
1 AAAAATA
38082132 AAAAATA
1 AAAAATA
38082139 AAAAATA
1 AAAAATA
38082146 AAAAATA
1 AAAAATA
38082153 AAAAA
1 AAAAA
38082158 GAGACTGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:38082149 original size:21 final size:21
Alignment explanation
Indices: 38082117--38082157 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
38082107 TAAGAATGAC
38082117 AAAAAGATAAAAATAAAAAAT
1 AAAAAGATAAAAATAAAAAAT
38082138 AAAAA-ATAAAAAATAAAAAA
1 AAAAAGAT-AAAAATAAAAAA
38082158 GAGACTGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.85, C:0.00, G:0.02, T:0.12
Consensus pattern (21 bp):
AAAAAGATAAAAATAAAAAAT
Found at i:38091558 original size:135 final size:142
Alignment explanation
Indices: 38091316--38091818 Score: 502
Period size: 144 Copynumber: 3.6 Consensus size: 142
38091306 AGCTATTCAG
* * *
38091316 CTAACTCAAATAAATGAAGGCTGTGAACATAACTCAACTAACCTTTAAACATTAGCT-GGTAGCG
1 CTAACTCAAATAAATGAAGGTTGTGAGCATAACTCAACTAACCTTTAAACATTAACTAGG-AGCG
* * * *
38091380 TAGGTCCACGAGCTATGTCGAAGTTTATCAGCTGGGAGGGTAGGTTAGCCAG-AGTTTCG-AGCT
65 TAGGTCCACGAGCTGTGTCGAAGTTTATTAGCTGGGAGCGTAGGTTAGCAAGTAGTTTCGAAGCT
38091443 -C-AAC-T-C-AA
130 GCGAACTTACTAA
* *
38091451 CTAACTCAAATAAATGAAGGTTGTGAGCATAATTCAACTAACCTTTAAACATTAACTAGGAGCGC
1 CTAACTCAAATAAATGAAGGTTGTGAGCATAACTCAACTAACCTTTAAACATTAACTAGGAGCGT
* * * * * * *
38091516 AGGTCCATGAGTTGTGTCGAAGTTTATTAGCTGAGAGCGTAGGTTTGTAAGTTGTTTCGAAGTTG
66 AGGTCCACGAGCTGTGTCGAAGTTTATTAGCTGGGAGCGTAGGTTAGCAAGTAGTTTCGAAGCTG
* *
38091581 CGAGCTTAACCTAG
131 CGAACTT-A-CTAA
* * * * *
38091595 CTAACTAAAATAAATGAATGTTGTGAGCATAACTCATCTAACCTTTAAACATCAACTAGGACCGT
1 CTAACTCAAATAAATGAAGGTTGTGAGCATAACTCAACTAACCTTTAAACATTAACTAGGAGCGT
* * ** ** * *
38091660 AAGTCCACGAGCTGTGTC-AGAGTTTATTAGCTGGGAGCGTAGGTTTGTGAGTTTTTTCGGAGTT
66 AGGTCCACGAGCTGTGTCGA-AGTTTATTAGCTGGGAGCGTAGGTTAGCAAGTAGTTTCGAAGCT
*
38091724 GCGAGCTTAACTCAA
130 GCGAACTT-ACT-AA
** * * * * * * *
38091739 CTAACAAAAATAAATAAAGGCTGTAAGCATAACTCAGCTAAGCTTTAAACATCAACTAGGAGCAT
1 CTAACTCAAATAAATGAAGGTTGTGAGCATAACTCAACTAACCTTTAAACATTAACTAGGAGCGT
* *
38091804 AGGTCCGCAAGCTGT
66 AGGTCCACGAGCTGT
38091819 TTCAGAGTTG
Statistics
Matches: 311, Mismatches: 45, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
135 99 0.32
136 8 0.03
137 3 0.01
138 1 0.00
139 2 0.01
140 1 0.00
143 4 0.01
144 193 0.62
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (142 bp):
CTAACTCAAATAAATGAAGGTTGTGAGCATAACTCAACTAACCTTTAAACATTAACTAGGAGCGT
AGGTCCACGAGCTGTGTCGAAGTTTATTAGCTGGGAGCGTAGGTTAGCAAGTAGTTTCGAAGCTG
CGAACTTACTAA
Found at i:38091698 original size:144 final size:144
Alignment explanation
Indices: 38091432--38091827 Score: 517
Period size: 144 Copynumber: 2.8 Consensus size: 144
38091422 GGTTAGCCAG
* * * *
38091432 AGTTTCGAGCTCAACTCAACTAACTCAAATAAATGAAGGTTGTGAGCATAATTCAACTAACCTTT
1 AGTTGCGAGCTTAACTCAACTAACTAAAATAAATGAAGGTTGTGAGCATAACTCAACTAACCTTT
* * * *
38091497 AAACATTAACTAGGAGCGCAGGTCCATGAGTTGTGTC-GAAGTTTATTAGCTGAGAGCGTAGGTT
66 AAACATCAACTAGGAGCGTAGGTCCACGAGCTGTGTCAG-AGTTTATTAGCTGAGAGCGTAGGTT
38091561 TGTAAGTTGTTTCGA
130 TGTAAGTTGTTTCGA
* * *
38091576 AGTTGCGAGCTTAAC-CTAGCTAACTAAAATAAATGAATGTTGTGAGCATAACTCATCTAACCTT
1 AGTTGCGAGCTTAACTC-AACTAACTAAAATAAATGAAGGTTGTGAGCATAACTCAACTAACCTT
* * *
38091640 TAAACATCAACTAGGACCGTAAGTCCACGAGCTGTGTCAGAGTTTATTAGCTGGGAGCGTAGGTT
65 TAAACATCAACTAGGAGCGTAGGTCCACGAGCTGTGTCAGAGTTTATTAGCTGAGAGCGTAGGTT
* * *
38091705 TGTGAGTTTTTTCGG
130 TGTAAGTTGTTTCGA
* * * * * *
38091720 AGTTGCGAGCTTAACTCAACTAACAAAAATAAATAAAGGCTGTAAGCATAACTCAGCTAAGCTTT
1 AGTTGCGAGCTTAACTCAACTAACTAAAATAAATGAAGGTTGTGAGCATAACTCAACTAACCTTT
* * * *
38091785 AAACATCAACTAGGAGCATAGGTCCGCAAGCTGTTTCAGAGTT
66 AAACATCAACTAGGAGCGTAGGTCCACGAGCTGTGTCAGAGTT
38091828 GCAAGCTTAA
Statistics
Matches: 218, Mismatches: 31, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
143 1 0.00
144 215 0.99
145 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.29
Consensus pattern (144 bp):
AGTTGCGAGCTTAACTCAACTAACTAAAATAAATGAAGGTTGTGAGCATAACTCAACTAACCTTT
AAACATCAACTAGGAGCGTAGGTCCACGAGCTGTGTCAGAGTTTATTAGCTGAGAGCGTAGGTTT
GTAAGTTGTTTCGA
Found at i:38092026 original size:33 final size:33
Alignment explanation
Indices: 38091988--38092054 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
38091978 AATGAGTAAA
38091988 AAACTATACATAGTACCTTTTCAAGTGATGGGC
1 AAACTATACATAGTACCTTTTCAAGTGATGGGC
38092021 AAACTATACATAGTACCTTTTCAAGTGATGGGC
1 AAACTATACATAGTACCTTTTCAAGTGATGGGC
38092054 A
1 A
38092055 TTCTAAGTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (33 bp):
AAACTATACATAGTACCTTTTCAAGTGATGGGC
Found at i:38095307 original size:17 final size:17
Alignment explanation
Indices: 38095265--38095307 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
38095255 TATGTAGCTA
38095265 GGCTGTGTGCGTCACAC
1 GGCTGTGTGCGTCACAC
* *
38095282 GGTTATGTGCGTCACAC
1 GGCTGTGTGCGTCACAC
38095299 GGCTGTGTG
1 GGCTGTGTG
38095308 ACAGCCCATG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.12, C:0.23, G:0.37, T:0.28
Consensus pattern (17 bp):
GGCTGTGTGCGTCACAC
Found at i:38096328 original size:26 final size:26
Alignment explanation
Indices: 38096290--38096358 Score: 93
Period size: 26 Copynumber: 2.7 Consensus size: 26
38096280 TTTTTAATAG
* *
38096290 TGCTTACAAGAGTTGTGAAATGGGCC
1 TGCTCACACGAGTTGTGAAATGGGCC
38096316 TGCTCACACGAGTTGTGAAATGGGCC
1 TGCTCACACGAGTTGTGAAATGGGCC
** *
38096342 TATTCACACGAGCTGTG
1 TGCTCACACGAGTTGTG
38096359 GGTCCAAATG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (26 bp):
TGCTCACACGAGTTGTGAAATGGGCC
Found at i:38126781 original size:54 final size:54
Alignment explanation
Indices: 38126699--38126808 Score: 195
Period size: 54 Copynumber: 2.0 Consensus size: 54
38126689 CAGTTAAACT
*
38126699 AAAGGAGGTTAGTCCATAGAAACCCAGAATCTTTAATTATATAGAAGCTTTGAG
1 AAAGGAGGTTAGTCCATAAAAACCCAGAATCTTTAATTATATAGAAGCTTTGAG
38126753 AAAGGAGGTTA-TCCCATAAAAACCCAGAATCTTTAATTATATAGAAGCTTTGAG
1 AAAGGAGGTTAGT-CCATAAAAACCCAGAATCTTTAATTATATAGAAGCTTTGAG
38126807 AA
1 AA
38126809 TCTTTACTCT
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
53 1 0.02
54 53 0.98
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (54 bp):
AAAGGAGGTTAGTCCATAAAAACCCAGAATCTTTAATTATATAGAAGCTTTGAG
Found at i:38129048 original size:50 final size:49
Alignment explanation
Indices: 38128947--38129052 Score: 117
Period size: 50 Copynumber: 2.1 Consensus size: 49
38128937 TGGCTCTCTT
* ** * **
38128947 GAGCTTCCCGTTTATGGCTCGTATGACCTTCCTTATAATTGTCTCTCAA
1 GAGCTTCCCATTTATGGCTCACATGACCTTCCTTATAATTGGCTCAAAA
38128996 GAGCTTCCCATTATATGGCTCACATGACCTTCC-TATTACA-TGGCTCAAAA
1 GAGCTTCCCATT-TATGGCTCACATGACCTTCCTTA-TA-ATTGGCTCAAAA
38129046 GAGCTTC
1 GAGCTTC
38129053 TCGATTACTT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
49 13 0.27
50 34 0.71
51 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (49 bp):
GAGCTTCCCATTTATGGCTCACATGACCTTCCTTATAATTGGCTCAAAA
Found at i:38129052 original size:25 final size:25
Alignment explanation
Indices: 38128994--38129052 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
38128984 ATTGTCTCTC
* *
38128994 AAGAGCTTCCCATTATATGGCTCAC
1 AAGAGCTTCCCATTACATGGCTCAA
* * *
38129019 ATGACCTTCCTATTACATGGCTCAA
1 AAGAGCTTCCCATTACATGGCTCAA
38129044 AAGAGCTTC
1 AAGAGCTTC
38129053 TCGATTACTT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (25 bp):
AAGAGCTTCCCATTACATGGCTCAA
Found at i:38131237 original size:54 final size:54
Alignment explanation
Indices: 38131150--38131255 Score: 178
Period size: 54 Copynumber: 2.0 Consensus size: 54
38131140 TAGTTAAACT
* *
38131150 AAAGGAGGTTAGTCCATAGAAACCCAGAATCTTTAATTATATAGAAGCTTTGGG
1 AAAGAAGGTTAGTCCATAAAAACCCAGAATCTTTAATTATATAGAAGCTTTGGG
38131204 AAAGAAGGTTA-TCCCATAAAAACCCAGAATCTTTAATTATATAGAAGCTTTG
1 AAAGAAGGTTAGT-CCATAAAAACCCAGAATCTTTAATTATATAGAAGCTTTG
38131256 AGAATCTTTA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
53 1 0.02
54 48 0.98
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (54 bp):
AAAGAAGGTTAGTCCATAAAAACCCAGAATCTTTAATTATATAGAAGCTTTGGG
Found at i:38133345 original size:24 final size:24
Alignment explanation
Indices: 38133290--38133432 Score: 87
Period size: 24 Copynumber: 5.9 Consensus size: 24
38133280 GCGTCTCGGT
*
38133290 ATTTGGCTCTTATGAGCTTCC-CA
1 ATTTGGCTCTTATGAGCTTCCTGA
*
38133313 ATTACGGCTCTTATGAGCTTCCTGA
1 ATT-TGGCTCTTATGAGCTTCCTGA
38133338 ATTTGGCTCTCT-TGAGCTT-CT-A
1 ATTTGGCTCT-TATGAGCTTCCTGA
* * * * *
38133360 GTTTATGGCTCATCTGACCTTCCCGA
1 -ATT-TGGCTCTTATGAGCTTCCTGA
* * * *
38133386 TAATTGGCTCTCAAGAGCTTCCTGTT
1 -ATTTGGCTCTTATGAGCTTCCTG-A
* *
38133412 ATATGGCTCATATGAGCTTCC
1 ATTTGGCTCTTATGAGCTTCC
38133433 AGTTACGTGG
Statistics
Matches: 89, Mismatches: 22, Indels: 16
0.70 0.17 0.13
Matches are distributed among these distances:
22 1 0.01
23 8 0.09
24 42 0.47
25 36 0.40
26 2 0.02
ACGTcount: A:0.18, C:0.25, G:0.19, T:0.38
Consensus pattern (24 bp):
ATTTGGCTCTTATGAGCTTCCTGA
Found at i:38133418 original size:25 final size:25
Alignment explanation
Indices: 38133351--38133437 Score: 63
Period size: 25 Copynumber: 3.5 Consensus size: 25
38133341 TGGCTCTCTT
* **
38133351 GAGCTTCTAGTT-TATGGCTCATCT
1 GAGCTTCCAGTTATATGGCTCATAA
* * *
38133375 GACCTTCCCGATA-ATTGGCTC-TCAA
1 GAGCTTCCAGTTATA-TGGCTCAT-AA
* *
38133400 GAGCTTCCTGTTATATGGCTCATAT
1 GAGCTTCCAGTTATATGGCTCATAA
38133425 GAGCTTCCAGTTA
1 GAGCTTCCAGTTA
38133438 CGTGGCTCGA
Statistics
Matches: 47, Mismatches: 11, Indels: 9
0.70 0.16 0.13
Matches are distributed among these distances:
24 10 0.21
25 35 0.74
26 2 0.04
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.36
Consensus pattern (25 bp):
GAGCTTCCAGTTATATGGCTCATAA
Found at i:38133444 original size:50 final size:49
Alignment explanation
Indices: 38133341--38133445 Score: 113
Period size: 50 Copynumber: 2.1 Consensus size: 49
38133331 TTCCTGAATT
** * * *
38133341 TGGCTCTCTTGAGCTTCTAGTTTATGGCTCATCTGACCTTCCCGATAAT
1 TGGCTCTCAAGAGCTTCTAGTTTATGGCTCATATGACCTTCCAGATAAG
* * *
38133390 TGGCTCTCAAGAGCTTCCT-GTTATATGGCTCATATGAGCTTCCAGTTACG
1 TGGCTCTCAAGAGCTT-CTAGTT-TATGGCTCATATGACCTTCCAGATAAG
38133440 TGGCTC
1 TGGCTC
38133446 GAAAGAGTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
49 17 0.37
50 29 0.63
ACGTcount: A:0.17, C:0.26, G:0.21, T:0.36
Consensus pattern (49 bp):
TGGCTCTCAAGAGCTTCTAGTTTATGGCTCATATGACCTTCCAGATAAG
Found at i:38136396 original size:19 final size:20
Alignment explanation
Indices: 38136353--38136396 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
38136343 TGGGGGTCTT
*
38136353 ACACGTCTATGTGCCCACCAG
1 ACACGGCTATGTGCCCA-CAG
*
38136374 ACACGGCTATGTGTCCA-AG
1 ACACGGCTATGTGCCCACAG
38136393 ACAC
1 ACAC
38136397 ATGTCTGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 6 0.29
21 15 0.71
ACGTcount: A:0.27, C:0.34, G:0.20, T:0.18
Consensus pattern (20 bp):
ACACGGCTATGTGCCCACAG
Found at i:38144278 original size:20 final size:18
Alignment explanation
Indices: 38144230--38144279 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
38144220 ACAATATAAT
38144230 TATTAAATTAA-ATTTAA
1 TATTAAATTAATATTTAA
38144247 TATTAAGA-TAATCACTTTAA
1 TATTAA-ATTAAT-A-TTTAA
38144267 TATTAAATTAATA
1 TATTAAATTAATA
38144280 AAATACTATC
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
17 9 0.32
18 1 0.04
19 3 0.11
20 15 0.54
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (18 bp):
TATTAAATTAATATTTAA
Found at i:38151924 original size:2 final size:2
Alignment explanation
Indices: 38151917--38151947 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
38151907 CATTACCAAA
38151917 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
38151948 TATAAACATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:38155228 original size:20 final size:18
Alignment explanation
Indices: 38155192--38155236 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 18
38155182 TATACTTAGT
38155192 TTAA-TAATTAATAAACC
1 TTAATTAATTAATAAACC
38155209 TTAATTAATTAAACTAAACC
1 TTAATTAATT-AA-TAAACC
38155229 TTAATTAA
1 TTAATTAA
38155237 CCTAACCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.16
18 5 0.20
19 2 0.08
20 14 0.56
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (18 bp):
TTAATTAATTAATAAACC
Found at i:38155245 original size:15 final size:16
Alignment explanation
Indices: 38155213--38155247 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
38155203 TAAACCTTAA
38155213 TTAATTAAACTAAACC
1 TTAATTAAACTAAACC
*
38155229 TTAATTAACCT-AACC
1 TTAATTAAACTAAACC
38155244 TTAA
1 TTAA
38155248 GTATCATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (16 bp):
TTAATTAAACTAAACC
Found at i:38157607 original size:26 final size:25
Alignment explanation
Indices: 38157551--38157609 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
38157541 ATTTTACCAA
38157551 GGGTAAAATCATCAAAATTTTATTG
1 GGGTAAAATCATCAAAATTTTATTG
** *
38157576 GAGGTAAAATTGTCAAAATTTTGTTAG
1 G-GGTAAAATCATCAAAATTTTATT-G
38157603 GGGTAAA
1 GGGTAAA
38157610 TTTGAGATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 1 0.03
26 26 0.90
27 2 0.07
ACGTcount: A:0.39, C:0.05, G:0.22, T:0.34
Consensus pattern (25 bp):
GGGTAAAATCATCAAAATTTTATTG
Found at i:38168510 original size:4 final size:4
Alignment explanation
Indices: 38168501--38168547 Score: 85
Period size: 4 Copynumber: 11.8 Consensus size: 4
38168491 TACAATTCAA
*
38168501 ATAC ATAC ATAC ATAC ATAT ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
38168548 TATCACTCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.51, C:0.21, G:0.00, T:0.28
Consensus pattern (4 bp):
ATAC
Found at i:38175359 original size:27 final size:28
Alignment explanation
Indices: 38175319--38175390 Score: 94
Period size: 28 Copynumber: 2.5 Consensus size: 28
38175309 TAGATTTTTT
38175319 TAAAATATAGAAAA-AATTTAAAATTTATTA
1 TAAAATATA-AAAATAA-TT-AAATTTATTA
*
38175349 -ATAATATAAAAATAATTAAATTTATTA
1 TAAAATATAAAAATAATTAAATTTATTA
38175376 TAAAATATAAAAATA
1 TAAAATATAAAAATA
38175391 CAAAAAATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
27 10 0.26
28 19 0.50
29 9 0.24
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (28 bp):
TAAAATATAAAAATAATTAAATTTATTA
Found at i:38175407 original size:27 final size:27
Alignment explanation
Indices: 38175320--38175413 Score: 93
Period size: 28 Copynumber: 3.3 Consensus size: 27
38175310 AGATTTTTTT
38175320 AAAATATAGAAAA-AATTTAAAATTTATTA
1 AAAATATA-AAAATAA--TAAAATTTATTA
* *
38175349 ATAATATAAAAATAATTAAATTTATTA
1 AAAATATAAAAATAATAAAATTTATTA
*
38175376 TAAAATATAAAAATACA-AAAAATTATTA
1 -AAAATATAAAAATA-ATAAAATTTATTA
38175404 AAAATTATAA
1 AAAA-TATAA
38175414 GGCATATAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
27 15 0.27
28 31 0.55
29 10 0.18
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (27 bp):
AAAATATAAAAATAATAAAATTTATTA
Found at i:38175700 original size:10 final size:10
Alignment explanation
Indices: 38175678--38175842 Score: 51
Period size: 10 Copynumber: 16.3 Consensus size: 10
38175668 ATCTTATTCT
*
38175678 TTTTATGAT-
1 TTTTATAATA
38175687 TTTTATAATA
1 TTTTATAATA
*
38175697 TTTTAGAAT-
1 TTTTATAATA
* *
38175706 TTTTCTATATT
1 TTTTATA-ATA
38175717 TGTTTATAGAT-
1 T-TTTATA-ATA
* *
38175728 TTTTA-ATTT
1 TTTTATAATA
* **
38175737 TTTTCTAAGC
1 TTTTATAATA
*
38175747 TTT-ATAAAA
1 TTTTATAATA
38175756 TTTTAGTAAT-
1 TTTTA-TAATA
*
38175766 TTTT-TTATA
1 TTTTATAATA
38175775 TTTTATAATAA
1 TTTTATAAT-A
38175786 TTTT-TAATA
1 TTTTATAATA
38175795 CTTTTATAATAA
1 -TTTTATAAT-A
*
38175807 GTTT-TAATAA
1 TTTTATAAT-A
*
38175817 TTTTATTTATA
1 TTTTA-TAATA
38175828 TTATTAATAATA
1 TT-TT-ATAATA
38175840 TTT
1 TTT
38175843 ATGATTGATT
Statistics
Matches: 117, Mismatches: 21, Indels: 34
0.68 0.12 0.20
Matches are distributed among these distances:
8 4 0.03
9 29 0.25
10 43 0.37
11 21 0.18
12 19 0.16
13 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (10 bp):
TTTTATAATA
Found at i:38175788 original size:21 final size:21
Alignment explanation
Indices: 38175766--38175822 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
38175756 TTTTAGTAAT
*
38175766 TTTTTTATA-TTTTATAATAA
1 TTTTTAATACTTTTATAATAA
38175786 TTTTTAATACTTTTATAATAA
1 TTTTTAATACTTTTATAATAA
* *
38175807 GTTTTAATAATTTTAT
1 TTTTTAATACTTTTAT
38175823 TTATATTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 8 0.24
21 25 0.76
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (21 bp):
TTTTTAATACTTTTATAATAA
Found at i:38175791 original size:31 final size:30
Alignment explanation
Indices: 38175677--38175821 Score: 79
Period size: 31 Copynumber: 4.8 Consensus size: 30
38175667 TATCTTATTC
*
38175677 TTTTTATGATTTTT-ATAATATTTTAG-AATT
1 TTTTTATAATTTTTAAT-A-ATTTTAGTAATT
* *
38175707 TTTCTAT-ATTTGTTTATAGATTTT--TAATT
1 TTTTTATAATTT-TTAATA-ATTTTAGTAATT
* *
38175736 TTTTTCTAAGCTTTATAA-AATTTTAGTAATT
1 TTTTTATAA--TTTTTAATAATTTTAGTAATT
* *
38175767 TTTTTAT-ATTTTATAATAATTTTTAATACTT
1 TTTTTATAATTTT-TAATAA-TTTTAGTAATT
* * *
38175798 TTATAATAAGTTTTAATAATTTTA
1 TTTTTATAATTTTTAATAATTTTA
38175822 TTTATATTAT
Statistics
Matches: 90, Mismatches: 13, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
28 3 0.03
29 21 0.23
30 24 0.27
31 35 0.39
32 7 0.08
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.61
Consensus pattern (30 bp):
TTTTTATAATTTTTAATAATTTTAGTAATT
Found at i:38176191 original size:19 final size:20
Alignment explanation
Indices: 38176155--38176192 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
38176145 ATATTTAGTT
**
38176155 ATTTCTTAAAATTTTTAATG
1 ATTTCTTAAAATCATTAATG
38176175 ATTT-TTAAAATCATTAAT
1 ATTTCTTAAAATCATTAAT
38176193 AAATTAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (20 bp):
ATTTCTTAAAATCATTAATG
Found at i:38176554 original size:20 final size:19
Alignment explanation
Indices: 38176531--38176592 Score: 81
Period size: 20 Copynumber: 3.2 Consensus size: 19
38176521 AAATTACAAA
38176531 AAAAATTTAAAATAATTTT
1 AAAAATTTAAAATAATTTT
38176550 CAAAAATTTAAAATAATTTT
1 -AAAAATTTAAAATAATTTT
* *
38176570 TAAAATTCAAAAT-ATTTAT
1 AAAAATTTAAAATAATTT-T
38176589 AAAA
1 AAAA
38176593 TTTTCAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
18 4 0.11
19 15 0.39
20 19 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAAATTTAAAATAATTTT
Found at i:38176628 original size:10 final size:10
Alignment explanation
Indices: 38176613--38176647 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
38176603 TTATATTTTA
38176613 AAAAAATTCT
1 AAAAAATTCT
38176623 AAAAAATTCT
1 AAAAAATTCT
*
38176633 AAAAACTTCT
1 AAAAAATTCT
38176643 AAAAA
1 AAAAA
38176648 TATATATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (10 bp):
AAAAAATTCT
Found at i:38177433 original size:20 final size:20
Alignment explanation
Indices: 38177368--38177440 Score: 62
Period size: 20 Copynumber: 3.5 Consensus size: 20
38177358 ATAAAAAATT
38177368 ATAAAATAAAGTTAAAACAAA
1 ATAAAATAAAGTT-AAACAAA
*
38177389 ATATATAA-AAA-TATAAA-AATT
1 ATA-A-AATAAAGT-TAAACAA-A
38177410 ATAAAATAAAGTTAAACAAA
1 ATAAAATAAAGTTAAACAAA
*
38177430 ATAATATAAAG
1 ATAAAATAAAG
38177441 AACATGAGGG
Statistics
Matches: 42, Mismatches: 3, Indels: 15
0.70 0.05 0.25
Matches are distributed among these distances:
19 2 0.05
20 20 0.48
21 13 0.31
22 5 0.12
23 2 0.05
ACGTcount: A:0.68, C:0.03, G:0.04, T:0.25
Consensus pattern (20 bp):
ATAAAATAAAGTTAAACAAA
Found at i:38189973 original size:2 final size:2
Alignment explanation
Indices: 38189966--38189990 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
38189956 CCTGTCATCA
38189966 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
38189991 ATGTATATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:38190846 original size:71 final size:72
Alignment explanation
Indices: 38190758--38190897 Score: 169
Period size: 71 Copynumber: 2.0 Consensus size: 72
38190748 ACTGCTTGCG
* * * * *
38190758 TCATCATTGTTTTGATGAT-AGCTTCCACATTG-CAAGACTTTTTTGTTTGTATTTGGATTTC-T
1 TCATCATGGATTTGATGATGA-CTTCCACATTGCCAA-ACTTTGTTGTTGGTATGTGGATTTCTT
38190820 TCTTTTGTT
64 TCTTTTGTT
* * *
38190829 TCATCATGGATTTGATGATGACTTTCACGTTGCCAATCTTTGTTGTTGGTATGTGGATTTCTTTC
1 TCATCATGGATTTGATGATGACTTCCACATTGCCAAACTTTGTTGTTGGTATGTGGATTTCTTTC
38190894 TTTT
66 TTTT
38190898 CATGTTGCTA
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
71 47 0.81
72 11 0.19
ACGTcount: A:0.16, C:0.14, G:0.18, T:0.51
Consensus pattern (72 bp):
TCATCATGGATTTGATGATGACTTCCACATTGCCAAACTTTGTTGTTGGTATGTGGATTTCTTTC
TTTTGTT
Found at i:38197163 original size:54 final size:54
Alignment explanation
Indices: 38197094--38197200 Score: 160
Period size: 54 Copynumber: 2.0 Consensus size: 54
38197084 TTATGCCTTC
* * * *
38197094 ATCCTGATTTGTTGAAGTTTTTTCTTTATCAGATTGATAACTAGTAACTTTTAT
1 ATCCTGATCTATTGAAGTTTTTTCTTCATCAAATTGATAACTAGTAACTTTTAT
* *
38197148 ATCCTGATCTATTGAAGTTTTTTCTTCATCAAATTTATAACTAGTAGCTTTTA
1 ATCCTGATCTATTGAAGTTTTTTCTTCATCAAATTGATAACTAGTAACTTTTA
38197201 AGTTTTCTGT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.27, C:0.13, G:0.11, T:0.49
Consensus pattern (54 bp):
ATCCTGATCTATTGAAGTTTTTTCTTCATCAAATTGATAACTAGTAACTTTTAT
Found at i:38198452 original size:27 final size:28
Alignment explanation
Indices: 38198417--38198492 Score: 111
Period size: 27 Copynumber: 2.8 Consensus size: 28
38198407 GCTTGAGTTA
* *
38198417 ATGGCTGCTTCCATCACTGCTTT-TGTC
1 ATGGTTGCTTCCATAACTGCTTTGTGTC
38198444 ATGGTTGCTTCCATAACTG-TTTGTGTC
1 ATGGTTGCTTCCATAACTGCTTTGTGTC
*
38198471 AGGGTTGCTTCCATAACTGCTT
1 ATGGTTGCTTCCATAACTGCTT
38198493 GCGTCATCAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 3 0.07
27 39 0.89
28 2 0.05
ACGTcount: A:0.14, C:0.24, G:0.21, T:0.41
Consensus pattern (28 bp):
ATGGTTGCTTCCATAACTGCTTTGTGTC
Found at i:38203749 original size:23 final size:23
Alignment explanation
Indices: 38203700--38203749 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
38203690 ATAGAGTTGG
* **
38203700 TTTTGGTACGAAATGGTATGGGG
1 TTTTGGTACGAAATGGTAAGGAA
38203723 TTTTGGTACGAAATGGTAAGGAA
1 TTTTGGTACGAAATGGTAAGGAA
38203746 TTTT
1 TTTT
38203750 TTGGTACAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.04, G:0.32, T:0.38
Consensus pattern (23 bp):
TTTTGGTACGAAATGGTAAGGAA
Found at i:38204774 original size:21 final size:20
Alignment explanation
Indices: 38204750--38204788 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
38204740 ATTAAACAAC
38204750 AAAAATTAATTGAGCTGAATT
1 AAAAATT-ATTGAGCTGAATT
*
38204771 AAAAGTTATTGAGCTGAA
1 AAAAATTATTGAGCTGAA
38204789 ATTGAGCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.46, C:0.05, G:0.18, T:0.31
Consensus pattern (20 bp):
AAAAATTATTGAGCTGAATT
Found at i:38204814 original size:30 final size:31
Alignment explanation
Indices: 38204757--38204826 Score: 99
Period size: 30 Copynumber: 2.3 Consensus size: 31
38204747 AACAAAAATT
38204757 AATTGAGCTGAATTAAAAGTTATTGAGCTGA
1 AATTGAGCTGAATTAAAAGTTATTGAGCTGA
*
38204788 AATTGAGCTG-ATT-CAAGTTCATTGAGCTGA
1 AATTGAGCTGAATTAAAAGTT-ATTGAGCTGA
*
38204818 AATGGAGCT
1 AATTGAGCT
38204827 TATTTCAGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
29 5 0.14
30 21 0.58
31 10 0.28
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.31
Consensus pattern (31 bp):
AATTGAGCTGAATTAAAAGTTATTGAGCTGA
Found at i:38225726 original size:79 final size:81
Alignment explanation
Indices: 38225590--38225774 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
38225580 TTGAATGATG
* *
38225590 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
38225654 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
38225669 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
38225731 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
38225749 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38225775 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:38225788 original size:40 final size:40
Alignment explanation
Indices: 38225591--38225774 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
38225581 TGAATGATGT
* * * *
38225591 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
38225631 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
38225671 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
38225709 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
38225750 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
38225775 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:38225796 original size:79 final size:79
Alignment explanation
Indices: 38225643--38225807 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
38225633 GGACTAAGAT
* * **
38225643 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
38225708 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
38225722 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
38225785 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
38225801 CCGAAGG
1 CCGAAGG
38225808 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:38241861 original size:10 final size:10
Alignment explanation
Indices: 38241846--38241884 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
38241836 CACAAAATTT
38241846 TTTATTTTTC
1 TTTATTTTTC
38241856 TTTATTTTTC
1 TTTATTTTTC
*
38241866 -GTATTTTTC
1 TTTATTTTTC
*
38241875 TATATTTTTC
1 TTTATTTTTC
38241885 CATTTTTCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 8 0.31
10 18 0.69
ACGTcount: A:0.13, C:0.10, G:0.03, T:0.74
Consensus pattern (10 bp):
TTTATTTTTC
Found at i:38241872 original size:19 final size:19
Alignment explanation
Indices: 38241848--38241884 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
38241838 CAAAATTTTT
*
38241848 TATTTTTCTTTATTTTTCG
1 TATTTTTCTATATTTTTCG
38241867 TATTTTTCTATATTTTTC
1 TATTTTTCTATATTTTTC
38241885 CATTTTTCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.14, C:0.11, G:0.03, T:0.73
Consensus pattern (19 bp):
TATTTTTCTATATTTTTCG
Found at i:38242321 original size:10 final size:10
Alignment explanation
Indices: 38242306--38242344 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
38242296 CACAAAATTT
38242306 TTTATTTTTC
1 TTTATTTTTC
38242316 TTTATTTTTC
1 TTTATTTTTC
*
38242326 -GTATTTTTC
1 TTTATTTTTC
*
38242335 TATATTTTTC
1 TTTATTTTTC
38242345 CATTTTTTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 8 0.31
10 18 0.69
ACGTcount: A:0.13, C:0.10, G:0.03, T:0.74
Consensus pattern (10 bp):
TTTATTTTTC
Found at i:38242330 original size:9 final size:10
Alignment explanation
Indices: 38242308--38242353 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
38242298 CAAAATTTTT
*
38242308 TATTTTTCTT
1 TATTTTTCTA
*
38242318 TATTTTTC-G
1 TATTTTTCTA
38242327 TATTTTTCTA
1 TATTTTTCTA
*
38242337 TATTTTTCCA
1 TATTTTTCTA
38242347 T-TTTTTC
1 TATTTTTC
38242354 GATCACTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
9 14 0.44
10 18 0.56
ACGTcount: A:0.13, C:0.13, G:0.02, T:0.72
Consensus pattern (10 bp):
TATTTTTCTA
Found at i:38242332 original size:19 final size:19
Alignment explanation
Indices: 38242308--38242344 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
38242298 CAAAATTTTT
*
38242308 TATTTTTCTTTATTTTTCG
1 TATTTTTCTATATTTTTCG
38242327 TATTTTTCTATATTTTTC
1 TATTTTTCTATATTTTTC
38242345 CATTTTTTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.14, C:0.11, G:0.03, T:0.73
Consensus pattern (19 bp):
TATTTTTCTATATTTTTCG
Found at i:38242351 original size:19 final size:19
Alignment explanation
Indices: 38242308--38242353 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
38242298 CAAAATTTTT
* *
38242308 TATTTTTCTTTATTTTTCG
1 TATTTTTCTATATTTTTCA
38242327 TATTTTTCTATATTTTTCCA
1 TATTTTTCTATATTTTT-CA
38242347 T-TTTTTC
1 TATTTTTC
38242354 GATCACTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 22 0.92
20 2 0.08
ACGTcount: A:0.13, C:0.13, G:0.02, T:0.72
Consensus pattern (19 bp):
TATTTTTCTATATTTTTCA
Found at i:38245109 original size:16 final size:16
Alignment explanation
Indices: 38245078--38245114 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
38245068 ATGTGAAGAA
38245078 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
38245094 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
38245110 TATTA
1 TATTA
38245115 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:38267364 original size:387 final size:387
Alignment explanation
Indices: 38266650--38267425 Score: 1534
Period size: 387 Copynumber: 2.0 Consensus size: 387
38266640 GGATACTCAA
38266650 CCCACCTTTCTTCTTAAGCTAACACAGTTGATTCCATATACTTATGTGGAGTTTTTTGCGAGTAG
1 CCCACCTTTCTTCTTAAGCTAACACAGTTGATTCCATATACTTATGTGGAGTTTTTTGCGAGTAG
38266715 TGTCCTGATTCGACCAAGGGTCTTGCCAGTGTTGAGTTAGGTACCTTAACGCAAGATAGAGAATA
66 TGTCCTGATTCGACCAAGGGTCTTGCCAGTGTTGAGTTAGGTACCTTAACGCAAGATAGAGAATA
38266780 TATTAGTGTTGCTGCCAATTTGGATTGTATTAAAACTAGTTTACCACTAAGTGATAATAGTTTGG
131 TATTAGTGTTGCTGCCAATTTGGATTGTATTAAAACTAGTTTACCACTAAGTGATAATAGTTTGG
38266845 ATTTCTAGTTGGCAAGTTTTTATTGTATGCGTTCCAAGGTGGTCTAGAAAAACTATTGGAATTAT
196 ATTTCTAGTTGGCAAGTTTTTATTGTATGCGTTCCAAGGTGGTCTAGAAAAACTATTGGAATTAT
38266910 GACACTAAGAATGAATTGCAGAGAAGAAAAAAAGTTTTAGCAACAAAGTTATCTACTAAAATTTT
261 GACACTAAGAATGAATTGCAGAGAAGAAAAAAAGTTTTAGCAACAAAGTTATCTACTAAAATTTT
*
38266975 TATATATTGCAGTCTCACCTTTATTAAACAATGAAACATGAGTATTTATAACAAGAAAAGCT
326 TATATATTGCAGTCTCACCTTTATTAAACAATGAAACAGGAGTATTTATAACAAGAAAAGCT
38267037 CCCACCTTTCTTCTTAAGCTAACACAGTTGATTCCATATACTTATGTGGAGTTTTTTGCGAGTAG
1 CCCACCTTTCTTCTTAAGCTAACACAGTTGATTCCATATACTTATGTGGAGTTTTTTGCGAGTAG
38267102 TGTCCTGATTCGACCAAGGGTCTTGCCAGTGTTGAGTTAGGTACCTTAACGCAAGATAGAGAATA
66 TGTCCTGATTCGACCAAGGGTCTTGCCAGTGTTGAGTTAGGTACCTTAACGCAAGATAGAGAATA
38267167 TATTAGTGTTGCTGCCAATTTGGATTGTATTAAAACTAGTTTACCACTAAGTGATAATAGTTTGG
131 TATTAGTGTTGCTGCCAATTTGGATTGTATTAAAACTAGTTTACCACTAAGTGATAATAGTTTGG
38267232 ATTTCTAGTTGGCAAGTTTTTATTGTATGCGTTCCAAGGTGGTCTAGAAAAACTATTGGAATTAT
196 ATTTCTAGTTGGCAAGTTTTTATTGTATGCGTTCCAAGGTGGTCTAGAAAAACTATTGGAATTAT
38267297 GACACTAAGAATGAATTGCAGAGAAGAAAAAAAGTTTTAGCAACAAAGTTATCTACTAAAATTTT
261 GACACTAAGAATGAATTGCAGAGAAGAAAAAAAGTTTTAGCAACAAAGTTATCTACTAAAATTTT
*
38267362 TATATATTGCAGTCTCACCTTTATTAAACAATGAAACAGGGGTATTTATAACAAGAAAAGCT
326 TATATATTGCAGTCTCACCTTTATTAAACAATGAAACAGGAGTATTTATAACAAGAAAAGCT
38267424 CC
1 CC
38267426 TAACTACAAA
Statistics
Matches: 387, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
387 387 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.34
Consensus pattern (387 bp):
CCCACCTTTCTTCTTAAGCTAACACAGTTGATTCCATATACTTATGTGGAGTTTTTTGCGAGTAG
TGTCCTGATTCGACCAAGGGTCTTGCCAGTGTTGAGTTAGGTACCTTAACGCAAGATAGAGAATA
TATTAGTGTTGCTGCCAATTTGGATTGTATTAAAACTAGTTTACCACTAAGTGATAATAGTTTGG
ATTTCTAGTTGGCAAGTTTTTATTGTATGCGTTCCAAGGTGGTCTAGAAAAACTATTGGAATTAT
GACACTAAGAATGAATTGCAGAGAAGAAAAAAAGTTTTAGCAACAAAGTTATCTACTAAAATTTT
TATATATTGCAGTCTCACCTTTATTAAACAATGAAACAGGAGTATTTATAACAAGAAAAGCT
Found at i:38271935 original size:24 final size:24
Alignment explanation
Indices: 38271906--38271953 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
38271896 ACTACATAAG
38271906 GAAATAACAAAGAT-TGTATGCTAA
1 GAAATAACAAAGATAT-TATGCTAA
*
38271930 GAAATAACAAATATATTATGCTAA
1 GAAATAACAAAGATATTATGCTAA
38271954 TAAAGTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.52, C:0.08, G:0.12, T:0.27
Consensus pattern (24 bp):
GAAATAACAAAGATATTATGCTAA
Found at i:38272109 original size:18 final size:18
Alignment explanation
Indices: 38272080--38272127 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
38272070 CCAATATTAT
* *
38272080 AGAGTTCACCAATATTGG
1 AGAGTTCGCCAATATGGG
38272098 ATGA-TTCGCCAATATGGG
1 A-GAGTTCGCCAATATGGG
38272116 AGAGTTCGCCAA
1 AGAGTTCGCCAA
38272128 GTTCAGTCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 2 0.08
18 22 0.85
19 2 0.08
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (18 bp):
AGAGTTCGCCAATATGGG
Found at i:38274688 original size:14 final size:14
Alignment explanation
Indices: 38274669--38274696 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
38274659 TGGCCCTATT
38274669 TCCACGTCAGCGCG
1 TCCACGTCAGCGCG
38274683 TCCACGTCAGCGCG
1 TCCACGTCAGCGCG
38274697 ATGTCAGGGG
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:0.14, C:0.43, G:0.29, T:0.14
Consensus pattern (14 bp):
TCCACGTCAGCGCG
Found at i:38275114 original size:97 final size:96
Alignment explanation
Indices: 38275006--38275236 Score: 297
Period size: 97 Copynumber: 2.4 Consensus size: 96
38274996 GTTTATTGTT
* * *
38275006 TTTTTAA-GAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTA-ATTTTTTT
1 TTTTTAAGGAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAATTTTTT
38275069 AAAAAAAAATAGATTAGGGTTTAGA-GTTAAAGG
66 --AAAAAAATAGATTAGGGTTTA-ATGTTAAAGG
*
38275102 TTTTTAAGGAAAAATCAAATAAATTAGGGTTCAGGGTTACTTGAGTAAATTAATTATAATTTTTT
1 TTTTTAAGGAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAATTTTTT
* * * *
38275167 ATAAAATTAGATTAGGGTTTAATGTTTAGGG
66 AAAAAAATAGATTAGGGTTTAATGTTAAAGG
* * * *
38275198 TTTTGAAGTAAAAACTCAAATAAATTGGGGTTTGGGGTT
1 TTTTTAAGGAAAAA-TCAAATAAATTAGGGTTTAGGGTT
38275237 TAAGGTTACT
Statistics
Matches: 118, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
95 1 0.01
96 44 0.37
97 66 0.56
98 7 0.06
ACGTcount: A:0.38, C:0.03, G:0.19, T:0.39
Consensus pattern (96 bp):
TTTTTAAGGAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAATTTTTT
AAAAAAATAGATTAGGGTTTAATGTTAAAGG
Found at i:38275470 original size:126 final size:126
Alignment explanation
Indices: 38275271--38275810 Score: 902
Period size: 126 Copynumber: 4.3 Consensus size: 126
38275261 GTTAATTTAC
* * ** *
38275271 AGAAGCTCCTATGTGGACGCACTTTTGCTACAGTAGATCCT-AAAAAATAATTTCGAGTAGACGT
1 AGAAGCTCCCACGTGGACGCGGTTTTGCTACAGTAGCTCCTAAAAAAATAATTTCGAGTAGACGT
*
38275335 TTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGAATGCTTTGTCAGCAGAAGTACTGAA
66 TTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAA
*
38275396 AGAAGCTCCCACGTGGATGCGGTTTTGCTACAGTAGCTCCTAAAAAAATAATTTCGAGTAGACGT
1 AGAAGCTCCCACGTGGACGCGGTTTTGCTACAGTAGCTCCTAAAAAAATAATTTCGAGTAGACGT
*
38275461 TTTTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAA
66 TTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAA
*
38275522 AGAAGCTCCCACGTGGATGCGGTTTTGCTACAGTAGCTCCTAAAAAAATAATTTCGAGTAGACGT
1 AGAAGCTCCCACGTGGACGCGGTTTTGCTACAGTAGCTCCTAAAAAAATAATTTCGAGTAGACGT
*
38275587 TTTTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAA
66 TTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAA
* * *
38275648 AGAAGCTCCCACGTGGACGCAGTTTTGCTACAGTAACTCCTGAAAAAATAATTTCGAGTAGACGT
1 AGAAGCTCCCACGTGGACGCGGTTTTGCTACAGTAGCTCCTAAAAAAATAATTTCGAGTAGACGT
* ** *
38275713 TTCTGAGCAAATACTGTCAAAAATTCTTTAAGCAGGATGCTTTGTCAGTAGAAGTACTGAA
66 TTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAA
* *
38275774 AGAAGCTCCCAAGTGGACGCGCTTTTGCTACAGTAGC
1 AGAAGCTCCCACGTGGACGCGGTTTTGCTACAGTAGC
38275811 GCATGTTTGG
Statistics
Matches: 393, Mismatches: 21, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
125 35 0.09
126 358 0.91
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (126 bp):
AGAAGCTCCCACGTGGACGCGGTTTTGCTACAGTAGCTCCTAAAAAAATAATTTCGAGTAGACGT
TTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAA
Found at i:38278512 original size:28 final size:28
Alignment explanation
Indices: 38278468--38278523 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
38278458 TCTGGATCCG
38278468 ATGAGCTATATCAACGAAGTGTACAAAT
1 ATGAGCTATATCAACGAAGTGTACAAAT
* *
38278496 ATGAGCTATGTCGACGAAGTGTACAAAT
1 ATGAGCTATATCAACGAAGTGTACAAAT
38278524 TAGAAAACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.25
Consensus pattern (28 bp):
ATGAGCTATATCAACGAAGTGTACAAAT
Found at i:38281372 original size:11 final size:11
Alignment explanation
Indices: 38281358--38281418 Score: 97
Period size: 11 Copynumber: 5.5 Consensus size: 11
38281348 TCTTTTAAAT
38281358 AGAAATTTGAG
1 AGAAATTTGAG
38281369 AGAAATTTGAG
1 AGAAATTTGAG
38281380 AGAAATTTGAG
1 AGAAATTTGAG
*
38281391 AGAATATTAGAG
1 AGAA-ATTTGAG
38281403 AGAAA-TTGAG
1 AGAAATTTGAG
38281413 AGAAAT
1 AGAAAT
38281419 GATTTAGTTG
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.20
11 27 0.59
12 10 0.22
ACGTcount: A:0.49, C:0.00, G:0.26, T:0.25
Consensus pattern (11 bp):
AGAAATTTGAG
Found at i:38282689 original size:168 final size:168
Alignment explanation
Indices: 38282411--38282900 Score: 953
Period size: 168 Copynumber: 2.9 Consensus size: 168
38282401 CCCTTCTCTT
38282411 ACATGGATATGGGTTGTTGTTTTTGTTCATAAACAAGTGAAAAGTACATAATTTAGGTGAAAGAG
1 ACATGGATATGGGTTGTTGTTTTTGTTCATAAACAAGTGAAAAGTACATAATTTAGGTGAAAGAG
38282476 ATAGAAATTTGTTCCATTTACAGCTATAAGTTTGCTATGTGTTTGCATAAATGACTGAACTTTGT
66 ATAGAAATTTGTTCCATTTACAGCTATAAGTTTGCTATGTGTTTGCATAAATGACTGAACTTTGT
38282541 GATCATAATTCAATTTAATAATAAACAAATTTTTGTGA
131 GATCATAATTCAATTTAATAATAAACAAATTTTTGTGA
38282579 ACATGGATATGGGTTGTTGTTTTTGTTCATAAACAAGTGAAAAGTACATAATTTAGGTGAAAGAG
1 ACATGGATATGGGTTGTTGTTTTTGTTCATAAACAAGTGAAAAGTACATAATTTAGGTGAAAGAG
38282644 ATAGAAATTTGTTCCATTTACAGCTATAAGTTTGCTATGTGTTTGCATAAATGACTGAACTTTGT
66 ATAGAAATTTGTTCCATTTACAGCTATAAGTTTGCTATGTGTTTGCATAAATGACTGAACTTTGT
38282709 GATCATAATTCAATTTAATAATAAACAAATTTTTGTGA
131 GATCATAATTCAATTTAATAATAAACAAATTTTTGTGA
38282747 ACATGGATATGGGTTGTTGTTTTTGTTCATAAACAAGTGAAAAGTACATAATTTAGGTGAAAGAG
1 ACATGGATATGGGTTGTTGTTTTTGTTCATAAACAAGTGAAAAGTACATAATTTAGGTGAAAGAG
* * *
38282812 ATAGAAATTTGTTGCATTTAGAGCTATAACTTTGCTATGTGTTTGCATAAATGACTGAACTTTGT
66 ATAGAAATTTGTTCCATTTACAGCTATAAGTTTGCTATGTGTTTGCATAAATGACTGAACTTTGT
38282877 GATCATAATTCAATTTAATAATAA
131 GATCATAATTCAATTTAATAATAA
38282901 CAATAAAACT
Statistics
Matches: 319, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
168 319 1.00
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (168 bp):
ACATGGATATGGGTTGTTGTTTTTGTTCATAAACAAGTGAAAAGTACATAATTTAGGTGAAAGAG
ATAGAAATTTGTTCCATTTACAGCTATAAGTTTGCTATGTGTTTGCATAAATGACTGAACTTTGT
GATCATAATTCAATTTAATAATAAACAAATTTTTGTGA
Found at i:38292611 original size:126 final size:126
Alignment explanation
Indices: 38292370--38292610 Score: 405
Period size: 126 Copynumber: 1.9 Consensus size: 126
38292360 ATACGTAAGC
*
38292370 AATTAATTAATTTCTTAAAATATCTAAAAATTATAGAATATTATTATAATTTTTAGTATTAAATA
1 AATTAATTAATTTCTTAAAATATCTAAAAATTATAGAATATTATTATAATTTTTAGTATTAAAAA
*
38292435 AACTTTACACTTTTTTAAAATTTTGATAATTTTTAAGTTTTTAGATTTTTTATAGGTAAAA
66 AACTTTACACTTTTTTAAAATTTTGATAATTTTTAAGTTTTCAGATTTTTTATAGGTAAAA
* *
38292496 AATTAATTAATTT-TTCAAAATTTTTAAAAATTATAGAATATTATTATAATTTTTAGTATTAAAA
1 AATTAATTAATTTCTT-AAAATATCTAAAAATTATAGAATATTATTATAATTTTTAGTATTAAAA
* *
38292560 AAATTTTACAC-TTTTTAAATTTTTGATAATTTTTAAGTTTTCAGATTTTTT
65 AAACTTTACACTTTTTTAAAATTTTGATAATTTTTAAGTTTTCAGATTTTTT
38292611 TTAAAAATTA
Statistics
Matches: 108, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
125 40 0.37
126 68 0.63
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.51
Consensus pattern (126 bp):
AATTAATTAATTTCTTAAAATATCTAAAAATTATAGAATATTATTATAATTTTTAGTATTAAAAA
AACTTTACACTTTTTTAAAATTTTGATAATTTTTAAGTTTTCAGATTTTTTATAGGTAAAA
Found at i:38295117 original size:398 final size:398
Alignment explanation
Indices: 38294381--38295178 Score: 1542
Period size: 398 Copynumber: 2.0 Consensus size: 398
38294371 ATGGAGTATA
38294381 GAGGGACAGCCCCCTCTTTTATAGGCACTAAAGAGGGGTGAGATTAAAAAGGAAAAATAATTTAT
1 GAGGGACAGCCCCCTCTTTTATAGGCACTAAAGAGGGGTGAGATTAAAAAGGAAAAATAATTTAT
*
38294446 GGTTGAAAATACGTCGTAGAAGAGACATTTTCATTGAACTTCTAAAAGAGGTACCTTAAATCTTA
66 GGTTGAAAATAAGTCGTAGAAGAGACATTTTCATTGAACTTCTAAAAGAGGTACCTTAAATCTTA
38294511 CCAGGGATTCCCAAGCTCAGGGCATATTGGTAGGCTTTGATGGGTGGTGGACAAAAAACGCATCC
131 CCAGGGATTCCCAAGCTCAGGGCATATTGGTAGGCTTTGATGGGTGGTGGACAAAAAACGCATCC
38294576 AACTGGGTGAGCTTTCTTGCTGACATGTCAGGGAAATCGTGCTTATTTGGACACACTTTCTCACA
196 AACTGGGTGAGCTTTCTTGCTGACATGTCAGGGAAATCGTGCTTATTTGGACACACTTTCTCACA
38294641 TTTTCCCTAACATGTTAGCAATAAAGCTCACCCAATTGGACGCGCTTTCTGTCCACCACCCTTCA
261 TTTTCCCTAACATGTTAGCAATAAAGCTCACCCAATTGGACGCGCTTTCTGTCCACCACCCTTCA
38294706 AAGCCTACTAAGATTCCCTACCCCTAGGAATCCCAGATACATTTTCAAGCATAGAAGACCCTTTC
326 AAGCCTACTAAGATTCCCTACCCCTAGGAATCCCAGATACATTTTCAAGCATAGAAGACCCTTTC
38294771 ATTATTGT
391 ATTATTGT
38294779 GAGGGACAGCCCCCTCTTTTATAGGCACTAAAGAGGGGTGAGATTAAAAAGGAAAAATAATTTAT
1 GAGGGACAGCCCCCTCTTTTATAGGCACTAAAGAGGGGTGAGATTAAAAAGGAAAAATAATTTAT
*
38294844 GGTTGAAAATAAGTCGTAGAAGAGACATTTTCATTGAACTTCTAAAAGAGGTGCCTTAAATCTTA
66 GGTTGAAAATAAGTCGTAGAAGAGACATTTTCATTGAACTTCTAAAAGAGGTACCTTAAATCTTA
38294909 CCAGGGATTCCCAAGCTCAGGGCATATTGGTAGGCTTTGATGGGTGGTGGACAAAAAACGCATCC
131 CCAGGGATTCCCAAGCTCAGGGCATATTGGTAGGCTTTGATGGGTGGTGGACAAAAAACGCATCC
*
38294974 AACTGGGTGAGCTTTCTTGTTGACATGTCAGGGAAATCGTGCTTATTTGGACACACTTTCTCACA
196 AACTGGGTGAGCTTTCTTGCTGACATGTCAGGGAAATCGTGCTTATTTGGACACACTTTCTCACA
* *
38295039 TTTTCCCTAACATGTTAGCAATAAAGCTCCCCCAATTGGGCGCGCTTTCTGTCCACCACCCTTCA
261 TTTTCCCTAACATGTTAGCAATAAAGCTCACCCAATTGGACGCGCTTTCTGTCCACCACCCTTCA
*
38295104 AAGCCTACTAAGATTCCCTACCCCTGGGAATCCCAGATACATTTTCAAGCATAGAAGACCCTTTC
326 AAGCCTACTAAGATTCCCTACCCCTAGGAATCCCAGATACATTTTCAAGCATAGAAGACCCTTTC
38295169 ATTATTGT
391 ATTATTGT
38295177 GA
1 GA
38295179 CTTCAATGAA
Statistics
Matches: 394, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
398 394 1.00
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.28
Consensus pattern (398 bp):
GAGGGACAGCCCCCTCTTTTATAGGCACTAAAGAGGGGTGAGATTAAAAAGGAAAAATAATTTAT
GGTTGAAAATAAGTCGTAGAAGAGACATTTTCATTGAACTTCTAAAAGAGGTACCTTAAATCTTA
CCAGGGATTCCCAAGCTCAGGGCATATTGGTAGGCTTTGATGGGTGGTGGACAAAAAACGCATCC
AACTGGGTGAGCTTTCTTGCTGACATGTCAGGGAAATCGTGCTTATTTGGACACACTTTCTCACA
TTTTCCCTAACATGTTAGCAATAAAGCTCACCCAATTGGACGCGCTTTCTGTCCACCACCCTTCA
AAGCCTACTAAGATTCCCTACCCCTAGGAATCCCAGATACATTTTCAAGCATAGAAGACCCTTTC
ATTATTGT
Found at i:38296843 original size:8 final size:8
Alignment explanation
Indices: 38296824--38296869 Score: 51
Period size: 8 Copynumber: 6.0 Consensus size: 8
38296814 TCATTCCCAT
38296824 ATCC-TTC
1 ATCCATTC
*
38296831 ATCCATCC
1 ATCCATTC
38296839 ATCCA-TC
1 ATCCATTC
*
38296846 ATTCATTC
1 ATCCATTC
*
38296854 ATTCATTC
1 ATCCATTC
38296862 ATCCATTC
1 ATCCATTC
38296870 TTCATTCTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
7 9 0.27
8 24 0.73
ACGTcount: A:0.24, C:0.37, G:0.00, T:0.39
Consensus pattern (8 bp):
ATCCATTC
Found at i:38296854 original size:23 final size:23
Alignment explanation
Indices: 38296828--38296876 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
38296818 TCCCATATCC
38296828 TTCATCCATCCATCCA-TCATTCA
1 TTCATCCATCCATCCATTC-TTCA
* *
38296851 TTCATTCATTCATCCATTCTTCA
1 TTCATCCATCCATCCATTCTTCA
38296874 TTC
1 TTC
38296877 TTCTCTTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.22, C:0.35, G:0.00, T:0.43
Consensus pattern (23 bp):
TTCATCCATCCATCCATTCTTCA
Found at i:38296859 original size:12 final size:12
Alignment explanation
Indices: 38296844--38296876 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
38296834 CATCCATCCA
38296844 TCATTCATTCAT
1 TCATTCATTCAT
*
38296856 TCATTCATCCAT
1 TCATTCATTCAT
38296868 TC-TTCATTC
1 TCATTCATTC
38296877 TTCTCTTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 6 0.32
12 13 0.68
ACGTcount: A:0.21, C:0.30, G:0.00, T:0.48
Consensus pattern (12 bp):
TCATTCATTCAT
Found at i:38297097 original size:21 final size:21
Alignment explanation
Indices: 38297058--38297097 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
38297048 ATTGCCGAAA
*
38297058 TTATTTTCTTCTTCCTTATCT
1 TTATTTTCTTCTTACTTATCT
* *
38297079 TTATTTTGTTCTTAGTTAT
1 TTATTTTCTTCTTACTTAT
38297098 TTAACATGTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.12, C:0.15, G:0.05, T:0.68
Consensus pattern (21 bp):
TTATTTTCTTCTTACTTATCT
Found at i:38311804 original size:20 final size:20
Alignment explanation
Indices: 38311779--38311845 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
38311769 CACATATGTG
38311779 CCCTTGTTTGTACTTCGGTA
1 CCCTTGTTTGTACTTCGGTA
* * * *
38311799 CCCTTGAATTGCACATAC-GTG
1 CCCTTG-TTTGTAC-TTCGGTA
* *
38311820 CCCCTGTTTGTACTTCGATA
1 CCCTTGTTTGTACTTCGGTA
38311840 CCCTTG
1 CCCTTG
38311846 AATTGCACAT
Statistics
Matches: 33, Mismatches: 11, Indels: 6
0.66 0.22 0.12
Matches are distributed among these distances:
19 2 0.06
20 17 0.52
21 12 0.36
22 2 0.06
ACGTcount: A:0.15, C:0.30, G:0.18, T:0.37
Consensus pattern (20 bp):
CCCTTGTTTGTACTTCGGTA
Found at i:38311805 original size:41 final size:41
Alignment explanation
Indices: 38311762--38312073 Score: 446
Period size: 41 Copynumber: 7.6 Consensus size: 41
38311752 AATTATTTCT
* * * *
38311762 TGAATTACACATATGTGCCCTTGTTTGTACTTCGGTACCCT
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
38311803 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCT
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * *
38311844 TGAATTGCACATATGTGCCTCTGTTTGGACTTTGATACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * *
38311885 TAAATTGCACATACGTTCCCTTATTTGTACTTCGGTACCCT
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
38311926 TGATTTGCACATACGTGCCCCTATTTGTACTTCGATACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
38311967 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
38312008 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
38312049 TGAATTGCACATACGTGCCCC-GTTT
1 TGAATTGCACATACGTGCCCCTGTTT
38312074 TACACTCCAA
Statistics
Matches: 243, Mismatches: 28, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
40 4 0.02
41 239 0.98
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.35
Consensus pattern (41 bp):
TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:38312050 original size:20 final size:21
Alignment explanation
Indices: 38311902--38312051 Score: 105
Period size: 21 Copynumber: 7.3 Consensus size: 21
38311892 CACATACGTT
*
38311902 CCCTTATTTGTACTTCGGTAC
1 CCCTGATTTGTACTTCGGTAC
* * * *
38311923 CCTTGATTTGCACATAC-GTGC
1 CCCTGATTTGTAC-TTCGGTAC
*
38311944 CCCT-ATTTGTACTTCGATAC
1 CCCTGATTTGTACTTCGGTAC
* * * *
38311964 CCCTGAATTGCACATAC-GTGC
1 CCCTGATTTGTAC-TTCGGTAC
38311985 CCCTG-TTTGTACTTCGGTAC
1 CCCTGATTTGTACTTCGGTAC
* * * *
38312005 CCCTGAATTGCACATAC-GTGC
1 CCCTGATTTGTAC-TTCGGTAC
38312026 CCCTG-TTTGTACTTCGGTAC
1 CCCTGATTTGTACTTCGGTAC
38312046 CCCTGA
1 CCCTGA
38312052 ATTGCACATA
Statistics
Matches: 93, Mismatches: 27, Indels: 18
0.67 0.20 0.13
Matches are distributed among these distances:
19 6 0.06
20 39 0.42
21 42 0.45
22 6 0.06
ACGTcount: A:0.17, C:0.31, G:0.17, T:0.34
Consensus pattern (21 bp):
CCCTGATTTGTACTTCGGTAC
Found at i:38326905 original size:29 final size:28
Alignment explanation
Indices: 38326857--38326921 Score: 85
Period size: 29 Copynumber: 2.3 Consensus size: 28
38326847 AATGCCTATT
* * * *
38326857 TTTTTTAATATTTATTGGATTAGGCCGC
1 TTTTTGAATATTTATGGGATTAGACCGA
38326885 TTTATTGAATATTTATGGGATTAGACCGA
1 TTT-TTGAATATTTATGGGATTAGACCGA
38326914 TTTTTGAA
1 TTTTTGAA
38326922 AATGCATTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 8 0.25
29 24 0.75
ACGTcount: A:0.26, C:0.08, G:0.18, T:0.48
Consensus pattern (28 bp):
TTTTTGAATATTTATGGGATTAGACCGA
Found at i:38328946 original size:9 final size:9
Alignment explanation
Indices: 38328925--38328961 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
38328915 GATTTTAAGG
38328925 TTTAGGG-T
1 TTTAGGGTT
38328933 TTTAGGGTT
1 TTTAGGGTT
*
38328942 TTTAGGATT
1 TTTAGGGTT
38328951 TTTAGGGTT
1 TTTAGGGTT
38328960 TT
1 TT
38328962 GGAGAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
8 7 0.27
9 19 0.73
ACGTcount: A:0.14, C:0.00, G:0.30, T:0.57
Consensus pattern (9 bp):
TTTAGGGTT
Found at i:38334492 original size:16 final size:16
Alignment explanation
Indices: 38334453--38334485 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
38334443 CGTTTGGTTC
*
38334453 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAAA
38334469 GCTGTAATGGAATAAA
1 GCTGTAATGGAATAAA
38334485 G
1 G
38334486 ACGTAATAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.30, T:0.24
Consensus pattern (16 bp):
GCTGTAATGGAATAAA
Found at i:38334834 original size:117 final size:117
Alignment explanation
Indices: 38334706--38335173 Score: 893
Period size: 117 Copynumber: 4.0 Consensus size: 117
38334696 TTAATCATAT
* *
38334706 TTTAACATAATTTTTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCAAGATAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCAAGATAAT
38334771 TATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 TATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
38334823 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCAAGATAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCAAGATAAT
38334888 TATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 TATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
38334940 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCAAGATAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCAAGATAAT
*
38335005 TATTCTTATATGAATTTACTAAAATCATAATATATAAGACTATAAAATATAA
66 TATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
38335057 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCAATATAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCAAGATAAT
38335122 TATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAA-ATAA
66 TATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
38335173 T
1 T
38335174 ATATAATCTA
Statistics
Matches: 346, Mismatches: 5, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
116 5 0.01
117 341 0.99
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (117 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCAAGATAAT
TATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:38335112 original size:10 final size:10
Alignment explanation
Indices: 38335050--38335122 Score: 50
Period size: 10 Copynumber: 7.9 Consensus size: 10
38335040 AAGACTATAA
38335050 AATATAATTT
1 AATATAATTT
*
38335060 AAAATAA-TT
1 AATATAATTT
*
38335069 -AT-T-ATTA
1 AATATAATTT
38335076 AATATAATTT
1 AATATAATTT
**
38335086 AATA-AAAAT
1 AATATAATTT
38335095 -ATATAATTT
1 AATATAATTT
* *
38335104 AATAAAATTC
1 AATATAATTT
38335114 AATATAATT
1 AATATAATT
38335123 ATTCTTATAT
Statistics
Matches: 46, Mismatches: 11, Indels: 12
0.67 0.16 0.17
Matches are distributed among these distances:
6 1 0.02
7 2 0.04
8 6 0.13
9 9 0.20
10 28 0.61
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (10 bp):
AATATAATTT
Found at i:38338435 original size:18 final size:18
Alignment explanation
Indices: 38338405--38338453 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
38338395 TAGGTATATG
38338405 TATAATTT-A-AAAAATA
1 TATAATTTAATAAAAATA
38338421 TATAATTTAATAAAAATA
1 TATAATTTAATAAAAATA
38338439 TATAATTTAATAAAA
1 TATAATTTAATAAAA
38338454 TAATTATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.26
17 1 0.03
18 22 0.71
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TATAATTTAATAAAAATA
Found at i:38342310 original size:31 final size:32
Alignment explanation
Indices: 38342249--38342315 Score: 91
Period size: 31 Copynumber: 2.1 Consensus size: 32
38342239 TATGAAATGA
* * * *
38342249 TCACCCAATTATTTGATTTTTTTCTTTTTTGG
1 TCACCCAACTATTCGATTCTTTTCTCTTTTGG
38342281 TCACCCAACTATTCGA-TCTTTTCTCTTTTGG
1 TCACCCAACTATTCGATTCTTTTCTCTTTTGG
38342312 TCAC
1 TCAC
38342316 TAGTCATTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 17 0.55
32 14 0.45
ACGTcount: A:0.16, C:0.24, G:0.09, T:0.51
Consensus pattern (32 bp):
TCACCCAACTATTCGATTCTTTTCTCTTTTGG
Found at i:38353074 original size:29 final size:32
Alignment explanation
Indices: 38353042--38353104 Score: 87
Period size: 29 Copynumber: 2.1 Consensus size: 32
38353032 GTTAATATAA
38353042 ATATTAATATA-AAATTTAAA-TTTAT-TATT
1 ATATTAATATATAAATTTAAATTTTATATATT
* *
38353071 ATATTATTATATAATTTTAAATTTTATATATT
1 ATATTAATATATAAATTTAAATTTTATATATT
38353103 AT
1 AT
38353105 TATTTCTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 10 0.34
30 8 0.28
31 5 0.17
32 6 0.21
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (32 bp):
ATATTAATATATAAATTTAAATTTTATATATT
Found at i:38356542 original size:23 final size:23
Alignment explanation
Indices: 38356511--38356585 Score: 132
Period size: 23 Copynumber: 3.3 Consensus size: 23
38356501 CCAAATAATT
*
38356511 ATATACAATATTCACTTCAGGGA
1 ATATGCAATATTCACTTCAGGGA
38356534 ATATGCAATATTCACTTCAGGGA
1 ATATGCAATATTCACTTCAGGGA
*
38356557 ATATGCAATATTCGCTTCAGGGA
1 ATATGCAATATTCACTTCAGGGA
38356580 ATATGC
1 ATATGC
38356586 CAAAATCTTC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (23 bp):
ATATGCAATATTCACTTCAGGGA
Found at i:38358880 original size:22 final size:25
Alignment explanation
Indices: 38358854--38358907 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
38358844 TTATAAATTA
38358854 AATTTAAAAG-ATA-TAAT-ACAAT
1 AATTTAAAAGCATATTAATAACAAT
38358876 AATTT-AAAGCATATTTAATAACAAT
1 AATTTAAAAGCATA-TTAATAACAAT
38358901 AATTTAA
1 AATTTAA
38358908 TCATAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 4 0.15
22 8 0.30
24 4 0.15
25 10 0.37
26 1 0.04
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.35
Consensus pattern (25 bp):
AATTTAAAAGCATATTAATAACAAT
Found at i:38363884 original size:14 final size:14
Alignment explanation
Indices: 38363867--38363895 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
38363857 AGACACCTGT
38363867 AATCAAACACATTA
1 AATCAAACACATTA
38363881 AATCAAACACATTA
1 AATCAAACACATTA
38363895 A
1 A
38363896 TCACATTTTA
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:0.59, C:0.21, G:0.00, T:0.21
Consensus pattern (14 bp):
AATCAAACACATTA
Found at i:38364090 original size:33 final size:33
Alignment explanation
Indices: 38364053--38364148 Score: 102
Period size: 33 Copynumber: 3.2 Consensus size: 33
38364043 TGAGTTAATG
38364053 CATGACTTAATTTAATGATGCAAACTTAACTAA
1 CATGACTTAATTTAATGATGCAAACTTAACTAA
* *
38364086 CATGA---AAGTT-A-CAT---AA-TTAAACTAA
1 CATGACTTAATTTAATGATGCAAACTT-AACTAA
38364111 CATGACTTAATTTAATGATGCAAACTTAACTAA
1 CATGACTTAATTTAATGATGCAAACTTAACTAA
38364144 CATGA
1 CATGA
38364149 AAGTTACATA
Statistics
Matches: 49, Mismatches: 4, Indels: 20
0.67 0.05 0.27
Matches are distributed among these distances:
24 2 0.04
25 13 0.27
28 6 0.12
29 2 0.04
30 6 0.12
33 18 0.37
34 2 0.04
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (33 bp):
CATGACTTAATTTAATGATGCAAACTTAACTAA
Done.