Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 307 of 311
Found at i:100468498 original size:28 final size:29
Alignment explanation
Indices: 100468457--100468535 Score: 83
Period size: 28 Copynumber: 2.8 Consensus size: 29
100468447 TATTAGGAAC
100468457 GTACATAAAA-AATATATACATAAA-AAAT
1 GTACA-AAAATAATATATACATAAAGAAAT
* * * *
100468485 TTACAACAATAATATA-AAATAAAGATAT
1 GTACAAAAATAATATATACATAAAGAAAT
100468513 GTACAAAAATATATATATACATA
1 GTACAAAAATA-ATATATACATA
100468536 TGTACATAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
27 9 0.22
28 22 0.55
29 5 0.12
30 4 0.10
ACGTcount: A:0.61, C:0.08, G:0.04, T:0.28
Consensus pattern (29 bp):
GTACAAAAATAATATATACATAAAGAAAT
Found at i:100471072 original size:15 final size:15
Alignment explanation
Indices: 100471050--100471104 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
100471040 AAATATACAC
100471050 TAAT-ATAATAATAG
1 TAATAATAATAATAG
* *
100471064 TTATAATAATACTAG
1 TAATAATAATAATAG
* * *
100471079 CAATAGTAATAATTG
1 TAATAATAATAATAG
100471094 TAATAATAATA
1 TAATAATAATA
100471105 TATACACAAT
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
14 3 0.10
15 28 0.90
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.36
Consensus pattern (15 bp):
TAATAATAATAATAG
Found at i:100475912 original size:9 final size:10
Alignment explanation
Indices: 100475870--100475915 Score: 51
Period size: 9 Copynumber: 4.7 Consensus size: 10
100475860 TAGTGATTTA
*
100475870 ATATAAATAT
1 ATATAATTAT
100475880 ATATAATTATT
1 ATATAATTA-T
*
100475891 ATTTAA-TAT
1 ATATAATTAT
100475900 ATATAATTA-
1 ATATAATTAT
100475909 ATATAAT
1 ATATAAT
100475916 ATTCGGGTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
9 13 0.42
10 12 0.39
11 6 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
ATATAATTAT
Found at i:100476356 original size:31 final size:31
Alignment explanation
Indices: 100476321--100476380 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
100476311 TAGTCATAAC
*
100476321 ATTTTAGGTAATTTCTATTTTGATCACTCAT
1 ATTTTAGATAATTTCTATTTTGATCACTCAT
* *
100476352 ATTTTAGATTATTTTTATTTTGATCACTC
1 ATTTTAGATAATTTCTATTTTGATCACTC
100476381 TCTATTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.25, C:0.12, G:0.08, T:0.55
Consensus pattern (31 bp):
ATTTTAGATAATTTCTATTTTGATCACTCAT
Found at i:100476787 original size:29 final size:30
Alignment explanation
Indices: 100476722--100476802 Score: 85
Period size: 31 Copynumber: 2.7 Consensus size: 30
100476712 AATCCCAAAA
* *
100476722 TTATACATGAACTATGGTTTAATATGTCATT
1 TTATACATGAACTTTGATTT-ATATGTCATT
*
100476753 GTATACATGAACTTTGATTT-TATG-CAATT
1 TTATACATGAACTTTGATTTATATGTC-ATT
*
100476782 TTATACATGAAATTTTGATTT
1 TTATACATG-AACTTTGATTT
100476803 GGTTCATTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
28 1 0.02
29 15 0.35
30 10 0.23
31 17 0.40
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.47
Consensus pattern (30 bp):
TTATACATGAACTTTGATTTATATGTCATT
Found at i:100476811 original size:29 final size:28
Alignment explanation
Indices: 100476748--100476811 Score: 65
Period size: 29 Copynumber: 2.2 Consensus size: 28
100476738 GTTTAATATG
* *
100476748 TCATTGTATACATGAACTTTGATTTTAT
1 TCATTTTATACATGAACTTTGATTTGAT
* * *
100476776 GCAATTTTATACATGAAATTTTGATTTGGT
1 TC-ATTTTATACATG-AACTTTGATTTGAT
100476806 TCATTT
1 TCATTT
100476812 AGTGTAAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
28 1 0.04
29 15 0.54
30 12 0.43
ACGTcount: A:0.28, C:0.09, G:0.12, T:0.50
Consensus pattern (28 bp):
TCATTTTATACATGAACTTTGATTTGAT
Found at i:100502056 original size:22 final size:22
Alignment explanation
Indices: 100502031--100502075 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
100502021 CTGTAAACAT
* *
100502031 TAAAAAAAAGGAAATAAAGAAA
1 TAAAAAAAAGAAAATAAAAAAA
100502053 TAAAAAAAAGAAAATAAAAAAA
1 TAAAAAAAAGAAAATAAAAAAA
100502075 T
1 T
100502076 GCTTAAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.80, C:0.00, G:0.09, T:0.11
Consensus pattern (22 bp):
TAAAAAAAAGAAAATAAAAAAA
Found at i:100502064 original size:13 final size:14
Alignment explanation
Indices: 100502046--100502074 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
100502036 AAAAGGAAAT
100502046 AAAG-AAATAAAAA
1 AAAGAAAATAAAAA
100502059 AAAGAAAATAAAAA
1 AAAGAAAATAAAAA
100502073 AA
1 AA
100502075 TGCTTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.86, C:0.00, G:0.07, T:0.07
Consensus pattern (14 bp):
AAAGAAAATAAAAA
Found at i:100502104 original size:21 final size:21
Alignment explanation
Indices: 100502078--100502121 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
100502068 AAAAAAATGC
100502078 TTAAAAAGTTTAGGGATTAGT
1 TTAAAAAGTTTAGGGATTAGT
100502099 TTAAAAAGTTTAGGGATTAGT
1 TTAAAAAGTTTAGGGATTAGT
100502120 TT
1 TT
100502122 GAGTTAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.23, T:0.41
Consensus pattern (21 bp):
TTAAAAAGTTTAGGGATTAGT
Found at i:100502695 original size:40 final size:41
Alignment explanation
Indices: 100502624--100502706 Score: 125
Period size: 40 Copynumber: 2.0 Consensus size: 41
100502614 TTAAAAATAT
* *
100502624 TTATATTAAAAAACACTACCATAAATATAATAAATGTTTTA
1 TTATATTAAAAAACACTACAATAAATATAATAAATATTTTA
100502665 TTATATTTAAAAAACAC-A-AATAAATATAATAAATATTTTA
1 TTATA-TTAAAAAACACTACAATAAATATAATAAATATTTTA
100502705 TT
1 TT
100502707 TTAGAATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
40 22 0.56
41 6 0.15
42 11 0.28
ACGTcount: A:0.53, C:0.07, G:0.01, T:0.39
Consensus pattern (41 bp):
TTATATTAAAAAACACTACAATAAATATAATAAATATTTTA
Found at i:100505215 original size:45 final size:45
Alignment explanation
Indices: 100505151--100505239 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
100505141 GATAAGGGAG
*
100505151 TCAGAGACCATCAAGCAGTACTCTTATAGGATAATGGCCACAGTT
1 TCAGAGACCATCAAGCAGTACTCTGATAGGATAATGGCCACAGTT
100505196 TCAGAGACCATCAAGCAGTACTCTGATAGGATAATGGCCACAGT
1 TCAGAGACCATCAAGCAGTACTCTGATAGGATAATGGCCACAGT
100505240 CAACAACATT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.22
Consensus pattern (45 bp):
TCAGAGACCATCAAGCAGTACTCTGATAGGATAATGGCCACAGTT
Found at i:100509589 original size:16 final size:16
Alignment explanation
Indices: 100509570--100509603 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
100509560 TAAATAACTT
*
100509570 ATTAAAAATTATAAAA
1 ATTAAAAATTAAAAAA
100509586 ATTAAAAATTAAAAAA
1 ATTAAAAATTAAAAAA
100509602 AT
1 AT
100509604 ATTAAAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
ATTAAAAATTAAAAAA
Found at i:100512051 original size:16 final size:16
Alignment explanation
Indices: 100512027--100512057 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
100512017 ATACGGACAA
*
100512027 CTTATGTGCATGAATT
1 CTTACGTGCATGAATT
100512043 CTTACGTGCATGAAT
1 CTTACGTGCATGAAT
100512058 CTGCATGAGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (16 bp):
CTTACGTGCATGAATT
Found at i:100527636 original size:11 final size:11
Alignment explanation
Indices: 100527620--100527646 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
100527610 TGATACTATC
100527620 ACAACTATTTA
1 ACAACTATTTA
100527631 ACAACTATTTA
1 ACAACTATTTA
100527642 ACAAC
1 ACAAC
100527647 GGAGATTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (11 bp):
ACAACTATTTA
Found at i:100531798 original size:57 final size:57
Alignment explanation
Indices: 100531726--100531840 Score: 214
Period size: 57 Copynumber: 2.0 Consensus size: 57
100531716 CATCTATCCA
100531726 GTATGTCCATACATAGAGAAAGAGAAAATGATCTTCTATAATCACAGAAATGTGAAT
1 GTATGTCCATACATAGAGAAAGAGAAAATGATCTTCTATAATCACAGAAATGTGAAT
100531783 GTATGTCCA-ATCATAGAGAAAGAGAAAATGATCTTCTATAATCACAGAAATGTGAAT
1 GTATGTCCATA-CATAGAGAAAGAGAAAATGATCTTCTATAATCACAGAAATGTGAAT
100531840 G
1 G
100531841 AGTTAAAAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
56 1 0.02
57 56 0.98
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.26
Consensus pattern (57 bp):
GTATGTCCATACATAGAGAAAGAGAAAATGATCTTCTATAATCACAGAAATGTGAAT
Found at i:100531831 original size:29 final size:29
Alignment explanation
Indices: 100531742--100531832 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 29
100531732 CCATACATAG
100531742 AGAAAGAGAAAATGATCTTCTATAATCAC
1 AGAAAGAGAAAATGATCTTCTATAATCAC
* * * * * *
100531771 AGAAATGTG--AATGTATGTCCAATCAT-AG
1 AGAAA-GAGAAAATG-ATCTTCTATAATCAC
100531799 AGAAAGAGAAAATGATCTTCTATAATCAC
1 AGAAAGAGAAAATGATCTTCTATAATCAC
100531828 AGAAA
1 AGAAA
100531833 TGTGAATGAG
Statistics
Matches: 45, Mismatches: 12, Indels: 10
0.67 0.18 0.15
Matches are distributed among these distances:
27 2 0.04
28 18 0.40
29 23 0.51
30 2 0.04
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.24
Consensus pattern (29 bp):
AGAAAGAGAAAATGATCTTCTATAATCAC
Found at i:100531841 original size:28 final size:28
Alignment explanation
Indices: 100531752--100531841 Score: 85
Period size: 28 Copynumber: 3.2 Consensus size: 28
100531742 AGAAAGAGAA
100531752 AATGATCTTCTATAATCACAGAAATGTG
1 AATGATCTTCTATAATCACAGAAATGTG
* * * * * *
100531780 AATGTATGTCCAATCAT-AGAGAAA-GAG
1 AATG-ATCTTCTATAATCACAGAAATGTG
100531807 AAAATGATCTTCTATAATCACAGAAATGTG
1 --AATGATCTTCTATAATCACAGAAATGTG
100531837 AATGA
1 AATGA
100531842 GTTAAAAATG
Statistics
Matches: 45, Mismatches: 12, Indels: 10
0.67 0.18 0.15
Matches are distributed among these distances:
27 2 0.04
28 23 0.51
29 18 0.40
30 2 0.04
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (28 bp):
AATGATCTTCTATAATCACAGAAATGTG
Found at i:100541052 original size:18 final size:18
Alignment explanation
Indices: 100541012--100541052 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 18
100541002 ACAAGAAAAG
*
100541012 TGAAAAATAATTTTATAA
1 TGAAAAATAATATTATAA
100541030 T-AAAAAT-ATATTATAA
1 TGAAAAATAATATTATAA
100541046 TTGAAAA
1 -TGAAAA
100541053 TTCGACTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 8 0.40
17 7 0.35
18 5 0.25
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (18 bp):
TGAAAAATAATATTATAA
Found at i:100541926 original size:181 final size:182
Alignment explanation
Indices: 100541698--100542066 Score: 670
Period size: 185 Copynumber: 2.0 Consensus size: 182
100541688 CATTTAAGTC
*
100541698 ACTTTACTGTTAAAATCGTTGATGTTAGCCTTCTTTGCTCGCACCGCTTGAATCAATTGAAG-TT
1 ACTTTACTGTTAAAATCGTTGATGTTAGCCTTCTTTGCTCGCACCGCTTCAATCAATTGAAGTTT
*
100541762 TTTTTTATAAAACAACTTTTT-TGTCATGAATTTACGAATCAAAATTTAAACAACTTTCCTTTTC
66 TTTTTTATAAAACAACTTTTTATGTCACGAATTTACGAATCAAAATTTAAACAACTTTCCTTTTC
*
100541826 CAATCTCCAACATTGACTGTTAGATCAACTTGGATATAATGTATGTTCTTCT
131 CAATCTCCAACATTGACTGTCAGATCAACTTGGATATAATGTATGTTCTTCT
100541878 ACTTTACTGTTAAAATCGTTGATGTGTAGCCTTCTTTGCTCGCACCGCTTCAATCAATTGAAGTT
1 ACTTTACTGTTAAAATCGTTGATGT-TAGCCTTCTTTGCTCGCACCGCTTCAATCAATTGAAG--
100541943 TTTTTTTTTATAAAACAACTTTTTATGTCACGAATTTACGAATCAAAATTTAAACAACTTTCCTT
63 TTTTTTTTTATAAAACAACTTTTTATGTCACGAATTTACGAATCAAAATTTAAACAACTTTCCTT
100542008 TTCCAATCTCCAACATTGACTGTCAGATCAACTTGGATATAATGTATGTTCTTCT
128 TTCCAATCTCCAACATTGACTGTCAGATCAACTTGGATATAATGTATGTTCTTCT
100542063 ACTT
1 ACTT
100542067 ATCTCGGGGT
Statistics
Matches: 181, Mismatches: 3, Indels: 5
0.96 0.02 0.03
Matches are distributed among these distances:
180 25 0.14
181 36 0.20
184 23 0.13
185 97 0.54
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.41
Consensus pattern (182 bp):
ACTTTACTGTTAAAATCGTTGATGTTAGCCTTCTTTGCTCGCACCGCTTCAATCAATTGAAGTTT
TTTTTTATAAAACAACTTTTTATGTCACGAATTTACGAATCAAAATTTAAACAACTTTCCTTTTC
CAATCTCCAACATTGACTGTCAGATCAACTTGGATATAATGTATGTTCTTCT
Found at i:100542305 original size:32 final size:30
Alignment explanation
Indices: 100542239--100542307 Score: 77
Period size: 32 Copynumber: 2.3 Consensus size: 30
100542229 CATTATTGTT
* * *
100542239 TTTAAA-AAATAAACTTAACAATTCAGTAC
1 TTTAAATAAAAAAACTTAACAATTCAATAA
*
100542268 CTTAAATAAAAAAACTTTAACTAATTCAATAA
1 TTTAAATAAAAAAAC-TTAAC-AATTCAATAA
100542300 TTTAAATA
1 TTTAAATA
100542308 GAAACTTTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
29 5 0.16
30 7 0.22
31 5 0.16
32 15 0.47
ACGTcount: A:0.54, C:0.12, G:0.01, T:0.33
Consensus pattern (30 bp):
TTTAAATAAAAAAACTTAACAATTCAATAA
Found at i:100545384 original size:16 final size:15
Alignment explanation
Indices: 100545361--100545398 Score: 67
Period size: 16 Copynumber: 2.5 Consensus size: 15
100545351 TGTATTTTGG
100545361 ATTTATAATTATTTT
1 ATTTATAATTATTTT
100545376 ATATTATAATTATTTT
1 AT-TTATAATTATTTT
100545392 ATTTATA
1 ATTTATA
100545399 TAATAATGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTTATAATTATTTT
Found at i:100549103 original size:14 final size:12
Alignment explanation
Indices: 100549076--100549105 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
100549066 CCAAAAAATT
100549076 ATATAAACACAA
1 ATATAAACACAA
100549088 ATATAAACACAA
1 ATATAAACACAA
*
100549100 AAATAA
1 ATATAA
100549106 CTACGACTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.70, C:0.13, G:0.00, T:0.17
Consensus pattern (12 bp):
ATATAAACACAA
Found at i:100549891 original size:11 final size:11
Alignment explanation
Indices: 100549875--100549916 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
100549865 AGGAAGAGAA
100549875 TTATATATTTT
1 TTATATATTTT
100549886 TTATAT-TTTAT
1 TTATATATTT-T
* *
100549897 TTGTATTTTTT
1 TTATATATTTT
100549908 TTATATATT
1 TTATATATT
100549917 ATATAATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
10 3 0.12
11 20 0.77
12 3 0.12
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (11 bp):
TTATATATTTT
Found at i:100550332 original size:26 final size:25
Alignment explanation
Indices: 100550285--100550333 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
100550275 ATATATATTT
**
100550285 TTAAAAATATTATTTATGTAAATTG
1 TTAAAAATATTATTTAAATAAATTG
*
100550310 TTAAAACATATTTTTTAAATAAAT
1 TTAAAA-ATATTATTTAAATAAAT
100550334 ATCATTACAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 6 0.30
26 14 0.70
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (25 bp):
TTAAAAATATTATTTAAATAAATTG
Found at i:100559794 original size:11 final size:11
Alignment explanation
Indices: 100559778--100559802 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
100559768 ATTTATTAGT
100559778 AAAAAAAAAGA
1 AAAAAAAAAGA
100559789 AAAAAAAAAGA
1 AAAAAAAAAGA
100559800 AAA
1 AAA
100559803 TAGTTTGCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:100567014 original size:3 final size:3
Alignment explanation
Indices: 100567006--100567035 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
100566996 TAATTTGCTG
*
100567006 TCA TCA TCA GCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
100567036 ACAGCCACTT
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:0.33, G:0.03, T:0.30
Consensus pattern (3 bp):
TCA
Found at i:100569174 original size:31 final size:31
Alignment explanation
Indices: 100569110--100569175 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
100569100 TTAAAGAAAC
* * *
100569110 AATTTAACTCTTTTTGAAAGGTTGATAGTTA
1 AATTTAACTCTTTTTAAAAGGTTGAGAGCTA
* *
100569141 AATTTGACTCTTTTTAAAAGGTTGAGGGCTA
1 AATTTAACTCTTTTTAAAAGGTTGAGAGCTA
100569172 AATT
1 AATT
100569176 AATAAAAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (31 bp):
AATTTAACTCTTTTTAAAAGGTTGAGAGCTA
Found at i:100577821 original size:54 final size:55
Alignment explanation
Indices: 100577735--100577870 Score: 136
Period size: 54 Copynumber: 2.5 Consensus size: 55
100577725 GGTGATCTGG
* * * * **
100577735 CCATACTCAGGGCTACCTCTATCTC-TCTTATAAAGACTTGGACCGT-G-GCCACGA
1 CCATAATCAGGGCTACCCCTCTCTCTTCCTATAAAGACTACGA-C-TAGAGCCACGA
* * *
100577789 CCATAATCAGGGCTCCCCCTCTC-CTTCCTATAAGGGCTACGACTAGAGCCACGA
1 CCATAATCAGGGCTACCCCTCTCTCTTCCTATAAAGACTACGACTAGAGCCACGA
*
100577843 CCATAATCGGGGCTACCCCTCTCTCTTC
1 CCATAATCAGGGCTACCCCTCTCTCTTC
100577871 GGAAGGGACT
Statistics
Matches: 67, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
52 1 0.01
53 3 0.04
54 59 0.88
55 4 0.06
ACGTcount: A:0.22, C:0.36, G:0.18, T:0.24
Consensus pattern (55 bp):
CCATAATCAGGGCTACCCCTCTCTCTTCCTATAAAGACTACGACTAGAGCCACGA
Found at i:100584555 original size:27 final size:27
Alignment explanation
Indices: 100584508--100584559 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
100584498 ATAATTCAAT
*
100584508 TTCCAATCAATATACAATTTCAATCCA
1 TTCCAATCAATACACAATTTCAATCCA
*
100584535 TTCCAATTCAATACAC-TTTTCAATC
1 TTCCAA-TCAATACACAATTTCAATC
100584560 ATACACATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 14 0.64
28 8 0.36
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (27 bp):
TTCCAATCAATACACAATTTCAATCCA
Found at i:100585254 original size:22 final size:22
Alignment explanation
Indices: 100585211--100585254 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
100585201 TAAAATCCTA
* *
100585211 TTTTTCCTTTGTTTTCTTTCCC
1 TTTTTCCTTTCTTTCCTTTCCC
100585233 TTTTT-CTTTCTTTCCTTCTCCC
1 TTTTTCCTTTCTTTCCTT-TCCC
100585255 ATGTTTTTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.00, C:0.32, G:0.02, T:0.66
Consensus pattern (22 bp):
TTTTTCCTTTCTTTCCTTTCCC
Found at i:100585297 original size:18 final size:18
Alignment explanation
Indices: 100585276--100585316 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
100585266 TTGGCTATTA
* *
100585276 TGTTTCTTTTCATTCTTT
1 TGTTTCCTTTAATTCTTT
*
100585294 TGTTTCCTTTAATTTTTT
1 TGTTTCCTTTAATTCTTT
100585312 TGTTT
1 TGTTT
100585317 AATTCTAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.07, C:0.12, G:0.07, T:0.73
Consensus pattern (18 bp):
TGTTTCCTTTAATTCTTT
Found at i:100585357 original size:11 final size:12
Alignment explanation
Indices: 100585322--100585359 Score: 51
Period size: 11 Copynumber: 3.1 Consensus size: 12
100585312 TGTTTAATTC
100585322 TAATAATAATATAA
1 TAAT-ATAATAT-A
100585336 TAATATAATAT-
1 TAATATAATATA
100585347 TAATATAATATA
1 TAATATAATATA
100585359 T
1 T
100585360 TTACTTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 11 0.48
12 1 0.04
13 7 0.30
14 4 0.17
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TAATATAATATA
Found at i:100585739 original size:5 final size:5
Alignment explanation
Indices: 100585729--100585769 Score: 73
Period size: 5 Copynumber: 8.0 Consensus size: 5
100585719 AATAATTAAG
100585729 TATAT TATAT TATAT TATAT TATAT TATAT TATTAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TA-TAT TATAT
100585770 ATAAAAGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 30 0.86
6 5 0.14
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:100587427 original size:39 final size:39
Alignment explanation
Indices: 100587320--100587454 Score: 123
Period size: 39 Copynumber: 3.4 Consensus size: 39
100587310 GACCTCGAGT
* * *
100587320 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGCTAG-TC
** ** *
100587361 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
*
100587399 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTATTACTTCG-GCTAGTC
*
100587438 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
100587455 CCATATTGGT
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
38 19 0.25
39 36 0.47
40 4 0.05
41 15 0.20
42 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
Found at i:100588431 original size:19 final size:18
Alignment explanation
Indices: 100588407--100588443 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
100588397 TTACAGTATG
*
100588407 TATATTTTTATTACACATA
1 TATATTATTATTAC-CATA
100588426 TATATTATTATTACCATA
1 TATATTATTATTACCATA
100588444 CAATTGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (18 bp):
TATATTATTATTACCATA
Found at i:100590312 original size:6 final size:6
Alignment explanation
Indices: 100590298--100590355 Score: 71
Period size: 6 Copynumber: 9.7 Consensus size: 6
100590288 TATACAGCCA
* * * * *
100590298 GAGCTG GAGCAG GAGCAG GAGCTG GAGCAG GAGCGG GAGCGG GAGCGG
1 GAGCAG GAGCAG GAGCAG GAGCAG GAGCAG GAGCAG GAGCAG GAGCAG
100590346 GAGCAG GAGC
1 GAGCAG GAGC
100590356 TGGGGCAGTC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.24, C:0.17, G:0.55, T:0.03
Consensus pattern (6 bp):
GAGCAG
Found at i:100590321 original size:18 final size:18
Alignment explanation
Indices: 100590298--100590363 Score: 96
Period size: 18 Copynumber: 3.7 Consensus size: 18
100590288 TATACAGCCA
100590298 GAGCTGGAGCAGGAGCAG
1 GAGCTGGAGCAGGAGCAG
*
100590316 GAGCTGGAGCAGGAGCGG
1 GAGCTGGAGCAGGAGCAG
* *
100590334 GAGCGGGAGCGGGAGCAG
1 GAGCTGGAGCAGGAGCAG
*
100590352 GAGCTGGGGCAG
1 GAGCTGGAGCAG
100590364 TCATCACTTG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.23, C:0.17, G:0.56, T:0.05
Consensus pattern (18 bp):
GAGCTGGAGCAGGAGCAG
Found at i:100590363 original size:12 final size:12
Alignment explanation
Indices: 100590298--100590355 Score: 80
Period size: 12 Copynumber: 4.8 Consensus size: 12
100590288 TATACAGCCA
* *
100590298 GAGCTGGAGCAG
1 GAGCAGGAGCGG
*
100590310 GAGCAGGAGCTG
1 GAGCAGGAGCGG
100590322 GAGCAGGAGCGG
1 GAGCAGGAGCGG
*
100590334 GAGCGGGAGCGG
1 GAGCAGGAGCGG
100590346 GAGCAGGAGC
1 GAGCAGGAGC
100590356 TGGGGCAGTC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 41 1.00
ACGTcount: A:0.24, C:0.17, G:0.55, T:0.03
Consensus pattern (12 bp):
GAGCAGGAGCGG
Found at i:100591477 original size:72 final size:72
Alignment explanation
Indices: 100591357--100591576 Score: 350
Period size: 72 Copynumber: 3.1 Consensus size: 72
100591347 AGGGTAGGGT
*
100591357 AAGAGCTGTTATTCAGACTAGGGTAAGAGCTGCTACTGCTTCCGAAGAGCCCATTACCCAATGTA
1 AAGAGCTGCTATTCAGACTAGGGTAAGAGCTGCTACTGCTTCCGAAGAGCCCATTACCCAATGTA
*
100591422 GCACCCG
66 GAACCCG
* * * * * * * *
100591429 AAGAGCTGCTATTGAGACTAGGGTGAGACCTGCTACTGCTTCCAAAGAGCCCATTAACTACTATA
1 AAGAGCTGCTATTCAGACTAGGGTAAGAGCTGCTACTGCTTCCGAAGAGCCCATTACCCAATGTA
100591494 GAACCCG
66 GAACCCG
100591501 AAGAGCTGCTATTCAGACTAGGGTAAGAGCTGCTACTGCTTCCGAAGAGCCCATTACCCAATGTA
1 AAGAGCTGCTATTCAGACTAGGGTAAGAGCTGCTACTGCTTCCGAAGAGCCCATTACCCAATGTA
100591566 GAACCCG
66 GAACCCG
100591573 AAGA
1 AAGA
100591577 ATGAAAGCCA
Statistics
Matches: 130, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 130 1.00
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.21
Consensus pattern (72 bp):
AAGAGCTGCTATTCAGACTAGGGTAAGAGCTGCTACTGCTTCCGAAGAGCCCATTACCCAATGTA
GAACCCG
Found at i:100594529 original size:25 final size:25
Alignment explanation
Indices: 100594501--100594550 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
100594491 AACAGTTATA
100594501 TATACACTGAGTACCCCATAAAAGC
1 TATACACTGAGTACCCCATAAAAGC
100594526 TATACACTGAGTACCCCATAAAAGC
1 TATACACTGAGTACCCCATAAAAGC
100594551 AATCTGTGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.28, G:0.12, T:0.20
Consensus pattern (25 bp):
TATACACTGAGTACCCCATAAAAGC
Found at i:100597163 original size:50 final size:50
Alignment explanation
Indices: 100597039--100597287 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
100597029 GATAATAACA
* * ** * *
100597039 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
100597090 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
100597140 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
100597190 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
100597245 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
100597288 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:100597217 original size:100 final size:104
Alignment explanation
Indices: 100597038--100597287 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
100597028 TGATAATAAC
**
100597038 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
100597103 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
100597140 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
100597203 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
100597245 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
100597288 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:100597403 original size:13 final size:13
Alignment explanation
Indices: 100597382--100597413 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
100597372 GCTTGGATCA
*
100597382 TCATCAAATAAAT
1 TCATAAAATAAAT
100597395 TCATAAAATAAAT
1 TCATAAAATAAAT
100597408 TCATAA
1 TCATAA
100597414 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:100597657 original size:31 final size:29
Alignment explanation
Indices: 100597621--100597678 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 29
100597611 CCTCGACTCT
*
100597621 AACTTTTTCAAAATTACAATTTTTGCCCCTA
1 AACTTTTACAAAATTAC-A-TTTTGCCCCTA
*
100597652 AACTTTTACATAATTACATTTTGCCCC
1 AACTTTTACAAAATTACATTTTGCCCC
100597679 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 9 0.36
30 1 0.04
31 15 0.60
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (29 bp):
AACTTTTACAAAATTACATTTTGCCCCTA
Found at i:100604562 original size:50 final size:50
Alignment explanation
Indices: 100604438--100604686 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
100604428 GATAATAACA
* * ** * *
100604438 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
100604489 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
100604539 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
100604589 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
100604644 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
100604687 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:100604616 original size:100 final size:104
Alignment explanation
Indices: 100604437--100604686 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
100604427 TGATAATAAC
**
100604437 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
100604502 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
100604539 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
100604602 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
100604644 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
100604687 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:100604802 original size:13 final size:13
Alignment explanation
Indices: 100604781--100604812 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
100604771 GCTTGGATCA
*
100604781 TCATCAAATAAAT
1 TCATAAAATAAAT
100604794 TCATAAAATAAAT
1 TCATAAAATAAAT
100604807 TCATAA
1 TCATAA
100604813 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:100605059 original size:30 final size:30
Alignment explanation
Indices: 100605024--100605081 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
100605014 CCTCGACTCT
*
100605024 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
100605054 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
100605082 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:100606665 original size:22 final size:22
Alignment explanation
Indices: 100606624--100606666 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
100606614 ATTTAAACTG
100606624 ATTAAAATTAATTATATAAATTA
1 ATTAAAATT-ATTATATAAATTA
100606647 ATTAAAATT-TTCATATAAAT
1 ATTAAAATTATT-ATATAAAT
100606667 CCCAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 2 0.11
22 8 0.42
23 9 0.47
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTAAAATTATTATATAAATTA
Found at i:100608746 original size:22 final size:22
Alignment explanation
Indices: 100608718--100608768 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
100608708 TGGCATGAAT
100608718 ATTTATTATTTAAAAAAGGTAA
1 ATTTATTATTTAAAAAAGGTAA
100608740 ATTTATTATTTAAAAAAGGTAA
1 ATTTATTATTTAAAAAAGGTAA
*
100608762 ATATATT
1 ATTTATT
100608769 TCGGGTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (22 bp):
ATTTATTATTTAAAAAAGGTAA
Found at i:100611683 original size:13 final size:13
Alignment explanation
Indices: 100611665--100611689 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
100611655 AAGATTAATG
100611665 TGTATATATACGA
1 TGTATATATACGA
100611678 TGTATATATACG
1 TGTATATATACG
100611690 TCATAACTTC
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:0.08, G:0.16, T:0.40
Consensus pattern (13 bp):
TGTATATATACGA
Found at i:100613348 original size:11 final size:12
Alignment explanation
Indices: 100613327--100613353 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
100613317 AAACTCTTTC
100613327 TTTTTCTTTTTT
1 TTTTTCTTTTTT
100613339 TTTTTCTTTTTT
1 TTTTTCTTTTTT
100613351 TTT
1 TTT
100613354 CCTCACCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (12 bp):
TTTTTCTTTTTT
Found at i:100623083 original size:24 final size:23
Alignment explanation
Indices: 100623046--100623091 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
100623036 GATTAAAGTT
* *
100623046 ATGGATAAATTTTGATTTTAAATA
1 ATGGATAAAGTTTG-TTTGAAATA
*
100623070 ATGGATAAGGTTTGTTTGAAAT
1 ATGGATAAAGTTTGTTTGAAAT
100623092 TTTTTAAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.43
Consensus pattern (23 bp):
ATGGATAAAGTTTGTTTGAAATA
Found at i:100624356 original size:20 final size:22
Alignment explanation
Indices: 100624317--100624357 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
100624307 GTTTAGCTAT
*
100624317 TTCCTCAAACAAGGAAAAAACA
1 TTCCTCAAACAAGAAAAAAACA
100624339 TTCC-CAAA-AAGAAAAAAAC
1 TTCCTCAAACAAGAAAAAAAC
100624358 CCGCCGCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 4 0.22
22 4 0.22
ACGTcount: A:0.59, C:0.22, G:0.07, T:0.12
Consensus pattern (22 bp):
TTCCTCAAACAAGAAAAAAACA
Found at i:100631865 original size:40 final size:40
Alignment explanation
Indices: 100631783--100631858 Score: 152
Period size: 40 Copynumber: 1.9 Consensus size: 40
100631773 TCATGAAAGT
100631783 CACAGGTTGAACATGACCTTAATGGCATCACCACCGTCAA
1 CACAGGTTGAACATGACCTTAATGGCATCACCACCGTCAA
100631823 CACAGGTTGAACATGACCTTAATGGCATCACCACCG
1 CACAGGTTGAACATGACCTTAATGGCATCACCACCG
100631859 CGAACACTAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.20
Consensus pattern (40 bp):
CACAGGTTGAACATGACCTTAATGGCATCACCACCGTCAA
Found at i:100641244 original size:21 final size:20
Alignment explanation
Indices: 100641207--100641249 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
100641197 TAATTTGGTC
*
100641207 AATTTTAATTTTATATTTTCT
1 AATTTTAAATTTATA-TTTCT
100641228 AATTTTAAAATTT-TATTTCT
1 AATTTT-AAATTTATATTTCT
100641248 AA
1 AA
100641250 CAAAAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 7 0.35
21 8 0.40
22 5 0.25
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (20 bp):
AATTTTAAATTTATATTTCT
Found at i:100641595 original size:5 final size:6
Alignment explanation
Indices: 100641580--100641604 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
100641570 TAAAATGTAA
100641580 AAAAAG AAAAAG AAAAAG AAAAAG A
1 AAAAAG AAAAAG AAAAAG AAAAAG A
100641605 GGGAGACTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:100643364 original size:53 final size:52
Alignment explanation
Indices: 100643278--100643379 Score: 168
Period size: 53 Copynumber: 1.9 Consensus size: 52
100643268 GGTTGTATTA
* *
100643278 GTTCAATTTTCAAATGTAAGGTTGTATTAGTTCAAACTAACTAGTTAAACGT
1 GTTCAATTTTCAAATATAAAGTTGTATTAGTTCAAACTAACTAGTTAAACGT
*
100643330 GTTCAATTTTCAAAATATAAAGTTGTATTAGTTCAAACTAATTAGTTAAA
1 GTTCAATTTTC-AAATATAAAGTTGTATTAGTTCAAACTAACTAGTTAAA
100643380 GTAAAAGAAC
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
52 11 0.24
53 35 0.76
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.39
Consensus pattern (52 bp):
GTTCAATTTTCAAATATAAAGTTGTATTAGTTCAAACTAACTAGTTAAACGT
Found at i:100646300 original size:4 final size:4
Alignment explanation
Indices: 100646291--100646315 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
100646281 TTTTTAAAAA
100646291 AATT AATT AATT AATT AATT AATT A
1 AATT AATT AATT AATT AATT AATT A
100646316 TTATTGGTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:100647491 original size:22 final size:22
Alignment explanation
Indices: 100647466--100647509 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
100647456 TAGTCATATA
100647466 ATAAATTATTAATGTAATAAAT
1 ATAAATTATTAATGTAATAAAT
* * *
100647488 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATGTAATAAAT
100647510 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATGTAATAAAT
Found at i:100647520 original size:20 final size:22
Alignment explanation
Indices: 100647480--100647521 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
100647470 ATTATTAATG
*
100647480 TAATAAATATAATTTATTATTT
1 TAATAAATATAATTTAATATTT
100647502 TAATAAAT-T-ATTTAATATTT
1 TAATAAATATAATTTAATATTT
100647522 CAATTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 1 0.05
22 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TAATAAATATAATTTAATATTT
Found at i:100647544 original size:13 final size:14
Alignment explanation
Indices: 100647528--100647569 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
100647518 ATTTCAATTT
100647528 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
100647541 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
100647556 ATTTTAAATAATAT
1 ATTTT-AATAATAT
100647570 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:100647554 original size:16 final size:16
Alignment explanation
Indices: 100647532--100647568 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
100647522 CAATTTATTT
100647532 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
100647549 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
100647564 TAATA
1 TAATA
100647569 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:100647621 original size:15 final size:15
Alignment explanation
Indices: 100647587--100647656 Score: 56
Period size: 15 Copynumber: 4.5 Consensus size: 15
100647577 ATATTATTGA
100647587 AAATA-TTCAAT-AT
1 AAATATTTCAATAAT
*
100647600 TAATATTTCAATAAT
1 AAATATTTCAATAAT
*
100647615 AAATATTTATTACAATTAT
1 AAATA--T-TT-CAATAAT
100647634 AAATATATT-AATAAT
1 AAATAT-TTCAATAAT
100647649 AAATATTT
1 AAATATTT
100647657 TGTAGTATAA
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
13 4 0.09
14 8 0.17
15 17 0.36
17 5 0.11
18 2 0.04
19 11 0.23
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (15 bp):
AAATATTTCAATAAT
Found at i:100647630 original size:19 final size:18
Alignment explanation
Indices: 100647606--100647656 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 18
100647596 ATATTAATAT
100647606 TTCAATAATAAATATTTA
1 TTCAATAATAAATATTTA
*
100647624 TTACAATTATAAATA--TA
1 TT-CAATAATAAATATTTA
100647641 TT-AATAATAAATATTT
1 TTCAATAATAAATATTT
100647657 TGTAGTATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
15 10 0.36
17 5 0.18
18 2 0.07
19 11 0.39
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (18 bp):
TTCAATAATAAATATTTA
Found at i:100648062 original size:32 final size:33
Alignment explanation
Indices: 100648025--100648096 Score: 101
Period size: 32 Copynumber: 2.2 Consensus size: 33
100648015 AACTTTTATG
* *
100648025 AAATATTTTAAACAAATCTA-CCAAATAACAGA
1 AAATATTTTAAACAAATCCATCCAAACAACAGA
* *
100648057 AAATATTTTACACAAATCCATCCAAACACCAGA
1 AAATATTTTAAACAAATCCATCCAAACAACAGA
100648090 AAATATT
1 AAATATT
100648097 AACTTTTCCA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
32 18 0.51
33 17 0.49
ACGTcount: A:0.53, C:0.19, G:0.03, T:0.25
Consensus pattern (33 bp):
AAATATTTTAAACAAATCCATCCAAACAACAGA
Found at i:100653414 original size:25 final size:24
Alignment explanation
Indices: 100653386--100653437 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 24
100653376 CTAGAAAGGG
100653386 TTAAA-AATTCATAAAAAAATGTTTA
1 TTAAATAA-TCAT-AAAAAATGTTTA
100653411 TTAAATTAATCATAAAAAATGTTTA
1 TTAAA-TAATCATAAAAAATGTTTA
100653436 TT
1 TT
100653438 TTGATGTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 19 0.76
26 4 0.16
27 2 0.08
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (24 bp):
TTAAATAATCATAAAAAATGTTTA
Found at i:100653707 original size:16 final size:17
Alignment explanation
Indices: 100653675--100653707 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
100653665 GAAGACTATA
100653675 AATATAAAATGAATTATT
1 AATATAAAA-GAATTATT
100653693 AATATAAAA-AATTAT
1 AATATAAAAGAATTAT
100653708 AGAATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (17 bp):
AATATAAAAGAATTATT
Found at i:100655380 original size:22 final size:23
Alignment explanation
Indices: 100655335--100655382 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
100655325 AATTGTGAAA
*
100655335 TTATAAAAAAAAACTTATTAATT
1 TTATAAAAAAAAACATATTAATT
100655358 TTATAAAATAAAAA-ATATT-ATT
1 TTATAAAA-AAAAACATATTAATT
100655380 TTA
1 TTA
100655383 AGACCATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 6 0.26
23 12 0.52
24 5 0.22
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
TTATAAAAAAAAACATATTAATT
Found at i:100659902 original size:17 final size:17
Alignment explanation
Indices: 100659880--100659913 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
100659870 ATCCACTAAT
*
100659880 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
100659897 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
100659914 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:100664542 original size:17 final size:17
Alignment explanation
Indices: 100664520--100664553 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
100664510 ATCCACTAAT
*
100664520 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
100664537 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
100664554 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:100666977 original size:30 final size:31
Alignment explanation
Indices: 100666931--100666989 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
100666921 TTTTTTAAAT
100666931 TTTTATGATATATTTTAATTTCTAAAAATAA
1 TTTTATGATATATTTTAATTTCTAAAAATAA
* * *
100666962 TTTTAT-ATTTATTTTATTTTTTAAAAAT
1 TTTTATGATATATTTTAATTTCTAAAAAT
100666990 TTAAAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 19 0.76
31 6 0.24
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (31 bp):
TTTTATGATATATTTTAATTTCTAAAAATAA
Found at i:100667141 original size:29 final size:29
Alignment explanation
Indices: 100667098--100667154 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
100667088 AACTAACATG
*
100667098 TGGTTTGAGTGTGGTTTACGTCATATGCT
1 TGGTTTGACTGTGGTTTACGTCATATGCT
* *
100667127 TGGTTTGACTTTGGTTTGCGTCATATGC
1 TGGTTTGACTGTGGTTTACGTCATATGC
100667155 ACATTGTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.12, C:0.12, G:0.30, T:0.46
Consensus pattern (29 bp):
TGGTTTGACTGTGGTTTACGTCATATGCT
Found at i:100671318 original size:11 final size:11
Alignment explanation
Indices: 100671274--100671330 Score: 53
Period size: 11 Copynumber: 5.1 Consensus size: 11
100671264 AATAAATAAA
*
100671274 TATTAGTTTAT
1 TATTATTTTAT
*
100671285 TAATATTTTGAT
1 TATTATTTT-AT
*
100671297 T-TAACTTTTAT
1 TATTA-TTTTAT
100671308 TATTATTTTAT
1 TATTATTTTAT
*
100671319 CATTATTTTAT
1 TATTATTTTAT
100671330 T
1 T
100671331 TAGTATATAA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
11 27 0.75
12 9 0.25
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.65
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:100671702 original size:59 final size:60
Alignment explanation
Indices: 100671576--100671702 Score: 220
Period size: 59 Copynumber: 2.1 Consensus size: 60
100671566 AGAGAGAAAG
100671576 TTAAGTTAAAGTTTGGTTTCAAGAGAATAAGGTATATGGATATTAAGGCTTTATGTTATTT
1 TTAAGTTAAAGTTTGGTTTCAAGAGAATAAGG-ATATGGATATTAAGGCTTTATGTTATTT
* *
100671637 TTAAGTTAAAGTTTGGTTTCAAGAGAATAAGG-TATGGTTGTTAAGGCTTTATGTTATTT
1 TTAAGTTAAAGTTTGGTTTCAAGAGAATAAGGATATGGATATTAAGGCTTTATGTTATTT
100671696 TTAAGTT
1 TTAAGTT
100671703 TAGTAGTGAT
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
59 32 0.50
61 32 0.50
ACGTcount: A:0.31, C:0.03, G:0.22, T:0.44
Consensus pattern (60 bp):
TTAAGTTAAAGTTTGGTTTCAAGAGAATAAGGATATGGATATTAAGGCTTTATGTTATTT
Found at i:100688056 original size:24 final size:23
Alignment explanation
Indices: 100688028--100688075 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
100688018 AAAAATTCTT
* *
100688028 ATTAAACCCCTAAAATTTTAAAAA
1 ATTAAAACCCT-AAATTTAAAAAA
*
100688052 ATTAAAACCCTTAATTTAAAAAA
1 ATTAAAACCCTAAATTTAAAAAA
100688075 A
1 A
100688076 AATTAAGTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (23 bp):
ATTAAAACCCTAAATTTAAAAAA
Found at i:100691925 original size:12 final size:12
Alignment explanation
Indices: 100691908--100691940 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
100691898 TGTTGTTAAA
100691908 GAAGCTGAAACT
1 GAAGCTGAAACT
100691920 GAAGCTGAAACT
1 GAAGCTGAAACT
*
100691932 GAAGTTGAA
1 GAAGCTGAA
100691941 CTTTCATCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.42, C:0.12, G:0.27, T:0.18
Consensus pattern (12 bp):
GAAGCTGAAACT
Found at i:100692033 original size:2 final size:2
Alignment explanation
Indices: 100692021--100692055 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
100692011 TACTGCAAAA
*
100692021 AG AG GG AG AG AG AG AG AG AG AG AG AG AG AG A- AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
100692056 CGTATGAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:100692993 original size:29 final size:30
Alignment explanation
Indices: 100692932--100692989 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 30
100692922 TAAACTAAAA
* **
100692932 AAAACATATTTTAATTTTAAAAATTTAATT
1 AAAACATATTTAAATTTTAAAAATAAAATT
100692962 AAAACAT-TTTAAATTTT-AAAATAAAATT
1 AAAACATATTTAAATTTTAAAAATAAAATT
100692990 TAAATTTTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 9 0.36
29 9 0.36
30 7 0.28
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (30 bp):
AAAACATATTTAAATTTTAAAAATAAAATT
Found at i:100708261 original size:29 final size:30
Alignment explanation
Indices: 100708209--100708271 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 30
100708199 CTAGAAAATT
*
100708209 TTTTTAAAATGTAAAAATTAAA-TT-ATAA
1 TTTTTAAAATGTAAAAATGAAATTTCATAA
* *
100708237 TTTTTATAATAGTAAAAATGCAATTTCATAA
1 TTTTTAAAAT-GTAAAAATGAAATTTCATAA
100708268 TTTT
1 TTTT
100708272 AATAGCTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 9 0.31
29 10 0.34
30 2 0.07
31 8 0.28
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (30 bp):
TTTTTAAAATGTAAAAATGAAATTTCATAA
Found at i:100715714 original size:7 final size:7
Alignment explanation
Indices: 100715702--100715731 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
100715692 GATTTCTTGG
100715702 GTAAGCA
1 GTAAGCA
100715709 GTAAGCA
1 GTAAGCA
100715716 GTAAGCA
1 GTAAGCA
100715723 GTAAGCA
1 GTAAGCA
100715730 GT
1 GT
100715732 TACTCGATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.40, C:0.13, G:0.30, T:0.17
Consensus pattern (7 bp):
GTAAGCA
Found at i:100716273 original size:32 final size:32
Alignment explanation
Indices: 100716237--100716302 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
100716227 AATGCGTTAA
*
100716237 AAAATCTAAATACCAAATTAGAAAATGTTGTG
1 AAAATCTAAATACCAAATTAGAAAAAGTTGTG
100716269 AAAATCTAAATACCAAATTAGAAAAAGTTGTG
1 AAAATCTAAATACCAAATTAGAAAAAGTTGTG
100716301 AA
1 AA
100716303 GCTCAATGAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.26
Consensus pattern (32 bp):
AAAATCTAAATACCAAATTAGAAAAAGTTGTG
Found at i:100717516 original size:14 final size:14
Alignment explanation
Indices: 100717497--100717527 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
100717487 CATACCATTC
100717497 ATTCAATTAAATAT
1 ATTCAATTAAATAT
100717511 ATTCAATTAAATAT
1 ATTCAATTAAATAT
100717525 ATT
1 ATT
100717528 TTTAATCAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTCAATTAAATAT
Found at i:100723741 original size:14 final size:15
Alignment explanation
Indices: 100723721--100723761 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
100723711 TTTGATTGAC
100723721 AGTAAAATGTTTTC-
1 AGTAAAATGTTTTCT
* *
100723735 CGTAAAATGATTTCT
1 AGTAAAATGTTTTCT
100723750 AG-AAAATGTTTT
1 AGTAAAATGTTTT
100723762 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 21 0.95
15 1 0.05
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (15 bp):
AGTAAAATGTTTTCT
Found at i:100723774 original size:34 final size:35
Alignment explanation
Indices: 100723730--100723796 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
100723720 CAGTAAAATG
* *
100723730 TTTTCCGTAAAATGA-TTTCTAGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACTAGAAAATATTTTAC
* *
100723764 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTAGAAAATATTTT
100723797 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 14 0.50
35 14 0.50
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTAGAAAATATTTTAC
Found at i:100725168 original size:27 final size:27
Alignment explanation
Indices: 100725138--100725207 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
100725128 AATAATCAAT
*
100725138 TCAATATCCAACAATGTTAAAACATA-A
1 TCAATATCCAACAAT-TCAAAACATATA
* *
100725165 TCAATATCTAACAAATTCAAGACATATA
1 TCAATATCCAAC-AATTCAAAACATATA
*
100725193 TCAAAATCCAACAAT
1 TCAATATCCAACAAT
100725208 CTAAAATTTG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.51, C:0.20, G:0.03, T:0.26
Consensus pattern (27 bp):
TCAATATCCAACAATTCAAAACATATA
Found at i:100727054 original size:57 final size:57
Alignment explanation
Indices: 100726993--100727136 Score: 243
Period size: 58 Copynumber: 2.5 Consensus size: 57
100726983 ATAAACAAAA
**
100726993 AAATTTGACAATGTTATAAATTTTTTTATTTCTATTTTTTATAATTTTTTAAATTAT
1 AAATTTGACAATGTTATAAATAATTTTATTTCTATTTTTTATAATTTTTTAAATTAT
*
100727050 AAATTTGACAATGTTATAAAAAAATTTTATTTCTATTTTTTATAATTTTTTAAATTAT
1 AAATTTGACAATGTTAT-AAATAATTTTATTTCTATTTTTTATAATTTTTTAAATTAT
100727108 AAATTTGACAATGTTATAAATAATGTTTA
1 AAATTTGACAATGTTATAAATAAT-TTTA
100727137 ACTGCACTGC
Statistics
Matches: 81, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
57 23 0.28
58 58 0.72
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.53
Consensus pattern (57 bp):
AAATTTGACAATGTTATAAATAATTTTATTTCTATTTTTTATAATTTTTTAAATTAT
Found at i:100727904 original size:14 final size:14
Alignment explanation
Indices: 100727885--100727912 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
100727875 TCTTTAAAAA
100727885 GAATTAACTTATTT
1 GAATTAACTTATTT
100727899 GAATTAACTTATTT
1 GAATTAACTTATTT
100727913 TTAAAGGCAA
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:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
GAATTAACTTATTT
Found at i:100730685 original size:96 final size:96
Alignment explanation
Indices: 100730516--100730697 Score: 283
Period size: 96 Copynumber: 1.9 Consensus size: 96
100730506 CAAATCAGAT
* * **
100730516 TAGCCACCCAAAGTAGCCATATTTTATAAAACTAAAAAATTATGAATATGATGGTTGTGTATTTG
1 TAGCCACCCAAAGTAGCCATATTTTATAAAACTAAAAAATTATGAATATGATGATTGAGTATTAA
100730581 TTCAGTTTATATTATTATTGTGATTAGCCAA
66 TTCAGTTTATATTATTATTGTGATTAGCCAA
* * * *
100730612 TAGCCACCCAAAGTTGTCATATTTTATAAAATTAAAAATTTATGAATATGATGATTGAGTATTAA
1 TAGCCACCCAAAGTAGCCATATTTTATAAAACTAAAAAATTATGAATATGATGATTGAGTATTAA
*
100730677 TTCGGTTTATATTATTATTGT
66 TTCAGTTTATATTATTATTGT
100730698 TGCTACAGTT
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 77 1.00
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.41
Consensus pattern (96 bp):
TAGCCACCCAAAGTAGCCATATTTTATAAAACTAAAAAATTATGAATATGATGATTGAGTATTAA
TTCAGTTTATATTATTATTGTGATTAGCCAA
Found at i:100732966 original size:3 final size:3
Alignment explanation
Indices: 100732958--100732993 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
100732948 AGATTCACAT
100732958 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
100732994 TACTGAGTGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:100735722 original size:26 final size:28
Alignment explanation
Indices: 100735692--100735756 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 28
100735682 AAAATTCATC
100735692 AAAAACATATATAAAA-T-TTAAA-AATT
1 AAAAA-ATATATAAAACTATTAAATAATT
100735718 AAAAAA-AT-TAAAACTATTAAATAATT
1 AAAAAATATATAAAACTATTAAATAATT
100735744 ATAAAAATATATA
1 A-AAAAATATATA
100735757 TCTTTTAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
23 5 0.15
24 3 0.09
25 6 0.18
26 10 0.30
27 5 0.15
28 2 0.06
29 2 0.06
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (28 bp):
AAAAAATATATAAAACTATTAAATAATT
Found at i:100735764 original size:27 final size:26
Alignment explanation
Indices: 100735708--100735767 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
100735698 ATATATAAAA
100735708 TTTAAA-AATTAAAAAAATTAAAACT
1 TTTAAATAATTAAAAAAATTAAAACT
* * * *
100735733 ATTAAATAATTATAAAAATATATATCT
1 TTTAAATAATTAAAAAAAT-TAAAACT
100735760 TTTAAATA
1 TTTAAATA
100735768 TTTTTTAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
25 5 0.18
26 11 0.39
27 12 0.43
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.38
Consensus pattern (26 bp):
TTTAAATAATTAAAAAAATTAAAACT
Found at i:100736088 original size:19 final size:18
Alignment explanation
Indices: 100736066--100736116 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
100736056 AACAAATTAA
*
100736066 AAAATTATACAATAGTAAC
1 AAAATTATACAATA-AAAC
100736085 AAAATTA-ACAATAAAAC
1 AAAATTATACAATAAAAC
*
100736102 AATAGTTATACAATA
1 AA-AATTATACAATA
100736117 TCTAAACAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 5 0.18
18 10 0.36
19 13 0.46
ACGTcount: A:0.61, C:0.10, G:0.04, T:0.25
Consensus pattern (18 bp):
AAAATTATACAATAAAAC
Found at i:100736145 original size:14 final size:14
Alignment explanation
Indices: 100736126--100736152 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
100736116 ATCTAAACAA
100736126 TAACAACATAATAG
1 TAACAACATAATAG
100736140 TAACAACATAATA
1 TAACAACATAATA
100736153 ATGAAATGAT
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:0.59, C:0.15, G:0.04, T:0.22
Consensus pattern (14 bp):
TAACAACATAATAG
Found at i:100736626 original size:17 final size:18
Alignment explanation
Indices: 100736598--100736639 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
100736588 TATATTTTGA
100736598 TTTTATATTTTTAAATTT
1 TTTTATATTTTTAAATTT
100736616 TTTTATATTTTTAAATTT
1 TTTTATATTTTTAAATTT
100736634 TTTTAT
1 TTTTAT
100736640 CTTTGAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTATATTTTTAAATTT
Found at i:100736648 original size:17 final size:18
Alignment explanation
Indices: 100736598--100736650 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
100736588 TATATTTTGA
* *
100736598 TTTTATATTTTTAAATTT
1 TTTTATACTTTGAAATTT
* *
100736616 TTTTATATTTTTAAATTT
1 TTTTATACTTTGAAATTT
100736634 TTTTAT-CTTTGAAATTT
1 TTTTATACTTTGAAATTT
100736651 AAATTTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
17 9 0.27
18 24 0.73
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTTATACTTTGAAATTT
Found at i:100740414 original size:35 final size:35
Alignment explanation
Indices: 100740391--100740583 Score: 248
Period size: 35 Copynumber: 5.5 Consensus size: 35
100740381 GGCAAAGTGC
*
100740391 GAAATGTAGGTATGGTATTATCCATACCGAGTTGT
1 GAAATGTAGGTATGGTATTATCCATACCGAGTTGA
*
100740426 GAAATGTAGGTATGGTATCATCCATACCGAGTTGA
1 GAAATGTAGGTATGGTATTATCCATACCGAGTTGA
* * *
100740461 GAAATATAGGTATGGTATTATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATTATCCATACCGAGTTGA
* * *
100740496 GAAATGTAGGCATGGCATT-TCCCATACCGAGTTGT
1 GAAATGTAGGTATGGTATTAT-CCATACCGAGTTGA
* *
100740531 GAAACGTAGGTATGGTATTTTCCATACCGAGTAT-A
1 GAAATGTAGGTATGGTATTATCCATACCGAGT-TGA
*
100740566 -AAATGTAGATATGGTATT
1 GAAATGTAGGTATGGTATT
100740584 TCAATGAGGA
Statistics
Matches: 137, Mismatches: 18, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
34 17 0.12
35 118 0.86
36 2 0.01
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTATCCATACCGAGTTGA
Found at i:100740557 original size:105 final size:104
Alignment explanation
Indices: 100740391--100740583 Score: 282
Period size: 105 Copynumber: 1.8 Consensus size: 104
100740381 GGCAAAGTGC
* * *
100740391 GAAATGTAGGTATGGTATTATCCATACCGAGTTGTGAAATGTAGGTATGGTATCATCCATACCGA
1 GAAATGTAGGCATGGCATTATCCATACCGAGTTGTGAAACGTAGGTATGGTATCATCCATACCGA
*
100740456 GT-TGAGAAATATAGGTATGGTATTATCCATACTGAGTTAA
66 GTAT-A-AAATATAGATATGGTATTATCCATACTGAGTTAA
**
100740496 GAAATGTAGGCATGGCATT-TCCCATACCGAGTTGTGAAACGTAGGTATGGTATTTTCCATACCG
1 GAAATGTAGGCATGGCATTAT-CCATACCGAGTTGTGAAACGTAGGTATGGTATCATCCATACCG
*
100740560 AGTATAAAATGTAGATATGGTATT
65 AGTATAAAATATAGATATGGTATT
100740584 TCAATGAGGA
Statistics
Matches: 79, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
104 17 0.22
105 61 0.77
106 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (104 bp):
GAAATGTAGGCATGGCATTATCCATACCGAGTTGTGAAACGTAGGTATGGTATCATCCATACCGA
GTATAAAATATAGATATGGTATTATCCATACTGAGTTAA
Found at i:100741566 original size:43 final size:43
Alignment explanation
Indices: 100741503--100741689 Score: 225
Period size: 43 Copynumber: 4.3 Consensus size: 43
100741493 ATTTAAAAAA
* **
100741503 AAACGCCGCTAAA-AGTCAAGACCTTTAGCAACGCTTTTCCTGC
1 AAACGCCGCTAAAGA-CCAAGACCTTTAGCGGCGCTTTTCCTGC
*
100741546 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCGC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCTGC
*
100741589 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTT-CTCGC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCT-GC
* * * * ** *
100741632 AAACGCCGCTAAAAATCATGACCTTTAGCGGCACTTTTTTTGA
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCTGC
*
100741675 AAACGCCACTAAAGA
1 AAACGCCGCTAAAGA
100741690 ACATATCTTT
Statistics
Matches: 128, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
42 1 0.01
43 125 0.98
44 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCTGC
Found at i:100741739 original size:22 final size:24
Alignment explanation
Indices: 100741714--100741757 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
100741704 AAAATATTAT
100741714 TAAATAATAT-TTAT-TTTTATGA
1 TAAATAATATATTATGTTTTATGA
*
100741736 TAAATATTATATTATGTTTTAT
1 TAAATAATATATTATGTTTTAT
100741758 TTTTGAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (24 bp):
TAAATAATATATTATGTTTTATGA
Found at i:100741925 original size:24 final size:24
Alignment explanation
Indices: 100741898--100741944 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
100741888 ATAATAGAAG
100741898 CTACAAAACTAGTAATAATTAACA
1 CTACAAAACTAGTAATAATTAACA
*
100741922 CTACAAAACTCGTAATAATTAAC
1 CTACAAAACTAGTAATAATTAAC
100741945 CATCATGGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.51, C:0.19, G:0.04, T:0.26
Consensus pattern (24 bp):
CTACAAAACTAGTAATAATTAACA
Found at i:100743327 original size:38 final size:39
Alignment explanation
Indices: 100743243--100743377 Score: 116
Period size: 39 Copynumber: 3.4 Consensus size: 39
100743233 ACCAATATGG
*
100743243 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
* * *
100743282 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAATAGTTGA
* * * *
100743320 TACCCAGTACCTCATCGAATCTA-TCCGAAGAAATA-TAGTGA
1 CACCCAGTGCCTCATCGGA--TAGTCCGAAGTAATAGT--TGA
*
100743361 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
100743378 ACTCGAGGTC
Statistics
Matches: 75, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
38 19 0.25
39 36 0.48
40 4 0.05
41 16 0.21
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
Found at i:100747539 original size:20 final size:20
Alignment explanation
Indices: 100747502--100747539 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
100747492 TGATGGGGAG
*
100747502 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
100747522 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
100747540 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:100749496 original size:46 final size:46
Alignment explanation
Indices: 100749444--100749581 Score: 222
Period size: 46 Copynumber: 3.0 Consensus size: 46
100749434 AGTGTGCTCT
*
100749444 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
100749490 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGTAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
100749536 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
100749582 ATGACAGAAA
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 85 1.00
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:100749605 original size:46 final size:46
Alignment explanation
Indices: 100749445--100749605 Score: 216
Period size: 46 Copynumber: 3.5 Consensus size: 46
100749435 GTGTGCTCTC
* * *
100749445 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
100749491 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGTAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
**
100749537 TGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
100749583 TGACA-GAAAATGAGTAACACCAT
1 TGATATG-AAATGAGTAAGACCAT
100749606 AGTTCAAAAA
Statistics
Matches: 102, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
45 1 0.01
46 101 0.99
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:100751339 original size:48 final size:48
Alignment explanation
Indices: 100751278--100751374 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
100751268 TATGTAAACC
100751278 ATATTTCACATAACAATATCTAGTTTAGGTGGACAAGAAAACCAAAAG
1 ATATTTCACATAACAATATCTAGTTTAGGTGGACAAGAAAACCAAAAG
100751326 ATATTTCACATAACAATATCTAGTTTAGGTGGACAAGAAAACCAAAAG
1 ATATTTCACATAACAATATCTAGTTTAGGTGGACAAGAAAACCAAAAG
100751374 A
1 A
100751375 AAGGAAGGGG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.25
Consensus pattern (48 bp):
ATATTTCACATAACAATATCTAGTTTAGGTGGACAAGAAAACCAAAAG
Found at i:100752791 original size:15 final size:14
Alignment explanation
Indices: 100752747--100752797 Score: 68
Period size: 13 Copynumber: 3.6 Consensus size: 14
100752737 AGTTACATGA
*
100752747 TTTTATAAAATATT
1 TTTTATAAATTATT
*
100752761 TTTTAT-TATTATT
1 TTTTATAAATTATT
100752774 TTTTATAAATTATAT
1 TTTTATAAATTAT-T
100752789 TTTTATAAA
1 TTTTATAAA
100752798 AGAAAAAACT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
13 11 0.34
14 11 0.34
15 10 0.31
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTATAAATTATT
Found at i:100753521 original size:14 final size:14
Alignment explanation
Indices: 100753496--100753534 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
100753486 ATAAACCATA
*
100753496 AACCCCTAAACCCC
1 AACCCTTAAACCCC
100753510 TAA-CCTTAAACCCC
1 -AACCCTTAAACCCC
100753524 AACCCTTAAAC
1 AACCCTTAAAC
100753535 TATAAATCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 2 0.09
14 18 0.82
15 2 0.09
ACGTcount: A:0.38, C:0.46, G:0.00, T:0.15
Consensus pattern (14 bp):
AACCCTTAAACCCC
Found at i:100753549 original size:22 final size:23
Alignment explanation
Indices: 100753524--100753576 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
100753514 CTTAAACCCC
*
100753524 AACCCTTAAACT-ATAAATCATA
1 AACCCTTAAACTCATAAACCATA
*
100753546 AACCC-TAAACTCATAACCCATA
1 AACCCTTAAACTCATAAACCATA
100753568 AA-CCTTAAA
1 AACCCTTAAA
100753577 ATAGTAACTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 8 0.30
22 19 0.70
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (23 bp):
AACCCTTAAACTCATAAACCATA
Found at i:100753851 original size:41 final size:40
Alignment explanation
Indices: 100753790--100753957 Score: 237
Period size: 41 Copynumber: 4.1 Consensus size: 40
100753780 TTTTTTGCGA
* * * * *
100753790 CGTTTTTCAAAAGCGTCGCTAAAAGCTCGATCTATAGCGG
1 CGTTTTCCAGAAGCGCCGCTAAAACCTCGACCTATAGCGG
*
100753830 CGTTTCTCCAGAAGCGCCGCTAAAACCTCTACCTATAGCGG
1 CGTTT-TCCAGAAGCGCCGCTAAAACCTCGACCTATAGCGG
*
100753871 CGTTTTCCTAGAAGCGCCACTAAAACCTCGACCTATAGCGG
1 CGTTTTCC-AGAAGCGCCGCTAAAACCTCGACCTATAGCGG
*
100753912 CGTTTTTCCAGAAGCGCCGCTAAAACCTCGATCTATAGCGG
1 CG-TTTTCCAGAAGCGCCGCTAAAACCTCGACCTATAGCGG
100753953 CGTTT
1 CGTTT
100753958 AGACCAAAAA
Statistics
Matches: 115, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
40 11 0.10
41 98 0.85
42 6 0.05
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (40 bp):
CGTTTTCCAGAAGCGCCGCTAAAACCTCGACCTATAGCGG
Found at i:100755209 original size:4 final size:4
Alignment explanation
Indices: 100755202--100755230 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
100755192 GCATGCATGA
100755202 ATCC ATCC ATCC ATCC ATCC ATCC ATCC A
1 ATCC ATCC ATCC ATCC ATCC ATCC ATCC A
100755231 AGTGCTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.28, C:0.48, G:0.00, T:0.24
Consensus pattern (4 bp):
ATCC
Found at i:100760236 original size:12 final size:12
Alignment explanation
Indices: 100760219--100760244 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
100760209 TTAATTCTTT
100760219 AAAAATTATAAA
1 AAAAATTATAAA
100760231 AAAAATTATAAA
1 AAAAATTATAAA
100760243 AA
1 AA
100760245 TATAAACTAT
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:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAAATTATAAA
Found at i:100770448 original size:33 final size:32
Alignment explanation
Indices: 100770411--100770503 Score: 102
Period size: 33 Copynumber: 2.8 Consensus size: 32
100770401 GCCTATTATG
100770411 TTGTTTTCTCACTATTTTATTGTTATTTT-CATA
1 TTGTTTTCTCACTATTTT-TTGTTATTTTAC-TA
100770444 TTGTTTTCTCACTATTTTTT-TATAGTTTTACTA
1 TTGTTTTCTCACTATTTTTTGT-TA-TTTTACTA
*
100770477 TTGTGTTGCT-ACTATTTTGTTGTTATT
1 TTGT-TTTCTCACTATTTT-TTGTTATT
100770504 GTTTAGATAT
Statistics
Matches: 53, Mismatches: 1, Indels: 12
0.80 0.02 0.18
Matches are distributed among these distances:
31 1 0.02
32 4 0.08
33 38 0.72
34 9 0.17
35 1 0.02
ACGTcount: A:0.16, C:0.11, G:0.10, T:0.63
Consensus pattern (32 bp):
TTGTTTTCTCACTATTTTTTGTTATTTTACTA
Found at i:100770584 original size:259 final size:258
Alignment explanation
Indices: 100770125--100770635 Score: 878
Period size: 259 Copynumber: 2.0 Consensus size: 258
100770115 AAAAAGTATG
* * * **
100770125 TTTAGAAAATGATTCGGGTCTATTATGTTATTTTTTCACTATTTTATTGTCATTTTTTTATTGTT
1 TTTAGAAAATGATCCGGGCCTATTATGTTATTTTCTCACTATTTTATTGTCATTTTCATATTGTT
100770190 TCCTCACTATTTTGTTATAGTTTTACTATTATGTTGCTACTATTTTATTGTTATTATTTAGATAT
66 TCCTCACTATTTTGTTATAGTTTTACTATTATGTTGCTACTATTTTATTGTTATTATTTAGATAT
* *
100770255 TGTATAACTCTTATTTTATCATTAATTTTGTTACTATTTTAGAGACATTTGCTTGTTAAGTTGTA
131 TGCATAACTCTTATTTTATCATTAATTTTATTACTATTTTAGAGACATTTGCTTGTTAAGTTGTA
100770320 CTTATCTTAATGTTATTTAAGTATACGCATTTTTAAAAATTTATTTTCAATTTGTTGGAAAATA
196 CTTATCTTAATGTTATTTAA-TATACGCATTTTTAAAAATTTATTTTCAATTTGTTGGAAAATA
* *
100770384 TTTAGAAAATGATCCGGGCCTATTATGTTGTTTTCTCACTATTTTATTGTTATTTTCATATTGTT
1 TTTAGAAAATGATCCGGGCCTATTATGTTATTTTCTCACTATTTTATTGTCATTTTCATATTGTT
* * * * *
100770449 TTCTCACTATTTTTTTATAGTTTTACTATTGTGTTGCTACTATTTTGTTGTTATTGTTTAGATAT
66 TCCTCACTATTTTGTTATAGTTTTACTATTATGTTGCTACTATTTTATTGTTATTATTTAGATAT
*
100770514 TGCATAACTCTTATTTTATCATTAATTTTATTACTATTTTAGAGACATTTTCTTGTTAAGTTGTA
131 TGCATAACTCTTATTTTATCATTAATTTTATTACTATTTTAGAGACATTTGCTTGTTAAGTTGTA
100770579 CTTATCTTAATGTTATTTAATATACGCATTTTTAAAAATTTATTTTCAATTTGTTGG
196 CTTATCTTAATGTTATTTAATATACGCATTTTTAAAAATTTATTTTCAATTTGTTGG
100770636 GAAACTTTTA
Statistics
Matches: 237, Mismatches: 15, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
258 37 0.16
259 200 0.84
ACGTcount: A:0.25, C:0.10, G:0.11, T:0.54
Consensus pattern (258 bp):
TTTAGAAAATGATCCGGGCCTATTATGTTATTTTCTCACTATTTTATTGTCATTTTCATATTGTT
TCCTCACTATTTTGTTATAGTTTTACTATTATGTTGCTACTATTTTATTGTTATTATTTAGATAT
TGCATAACTCTTATTTTATCATTAATTTTATTACTATTTTAGAGACATTTGCTTGTTAAGTTGTA
CTTATCTTAATGTTATTTAATATACGCATTTTTAAAAATTTATTTTCAATTTGTTGGAAAATA
Found at i:100771031 original size:27 final size:26
Alignment explanation
Indices: 100770971--100771032 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
100770961 ATTTTATTTT
100770971 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * *
100770997 ATAATTATTAGGATTATTCAA-ATTTAGG
1 AT-TTTATTAGGATAATT-AATA-TTAAG
100771025 ATTTTATT
1 ATTTTATT
100771033 TTAATTATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 19 0.66
28 8 0.28
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:100774803 original size:4 final size:4
Alignment explanation
Indices: 100774796--100774863 Score: 56
Period size: 4 Copynumber: 17.8 Consensus size: 4
100774786 TCTTTTTATT
* * *
100774796 TTTA TTTA -TTA TTTA -TTA TTTA TTATT TTTC TTTA TTTT TTTA -TTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA TTTA TTTA TTTA TTTA
100774842 TTTA -TTA TTTA -TTA TTTTA TTT
1 TTTA TTTA TTTA TTTA -TTTA TTT
100774864 TAGTTAAATA
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
3 15 0.29
4 31 0.60
5 6 0.12
ACGTcount: A:0.22, C:0.01, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:100774807 original size:7 final size:7
Alignment explanation
Indices: 100774791--100774858 Score: 95
Period size: 7 Copynumber: 9.9 Consensus size: 7
100774781 ATCTTTCTTT
100774791 TTATTT-
1 TTATTTA
100774797 TTATTTA
1 TTATTTA
100774804 TTATTTA
1 TTATTTA
100774811 TTATTTA
1 TTATTTA
100774818 TTATTT-
1 TTATTTA
*
100774824 TTCTTTA
1 TTATTTA
*
100774831 TTTTTTTA
1 -TTATTTA
100774839 TTATTTA
1 TTATTTA
100774846 TTATTTA
1 TTATTTA
100774853 TTATTT
1 TTATTT
100774859 TATTTTAGTT
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
6 11 0.20
7 39 0.70
8 6 0.11
ACGTcount: A:0.22, C:0.01, G:0.00, T:0.76
Consensus pattern (7 bp):
TTATTTA
Found at i:100774846 original size:35 final size:37
Alignment explanation
Indices: 100774790--100774859 Score: 126
Period size: 35 Copynumber: 1.9 Consensus size: 37
100774780 AATCTTTCTT
100774790 TTTATTTTTATTTATTATTTATTATTTATTATTTTTC
1 TTTATTTTTATTTATTATTTATTATTTATTATTTTTC
100774827 TTTA-TTTT-TTTATTATTTATTATTTATTATTTT
1 TTTATTTTTATTTATTATTTATTATTTATTATTTT
100774860 ATTTTAGTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
35 25 0.76
36 4 0.12
37 4 0.12
ACGTcount: A:0.21, C:0.01, G:0.00, T:0.77
Consensus pattern (37 bp):
TTTATTTTTATTTATTATTTATTATTTATTATTTTTC
Found at i:100774876 original size:35 final size:35
Alignment explanation
Indices: 100774802--100774876 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 35
100774792 TATTTTTATT
* ***
100774802 TATTATTTATTATTTATTATTTTTCTTTATTTTTT
1 TATTATTTATTATTTATTATTTTTCTTTAGTTAAA
100774837 TATTATTTATTATTTATTATTTTAT-TTTAGTTAAA
1 TATTATTTATTATTTATTATTTT-TCTTTAGTTAAA
100774872 TATTA
1 TATTA
100774877 ATAAATTTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 34 0.97
36 1 0.03
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.71
Consensus pattern (35 bp):
TATTATTTATTATTTATTATTTTTCTTTAGTTAAA
Found at i:100775022 original size:42 final size:42
Alignment explanation
Indices: 100774975--100775078 Score: 156
Period size: 42 Copynumber: 2.5 Consensus size: 42
100774965 CCATGGTACG
* *
100774975 AAACAGTTCTATTCCAGCCCAAAATGTCATATCCCTGCTGCC
1 AAACAGTTCTATTCCAGCCCAAAATGCCATATCCCTGCAGCC
* *
100775017 AAACAGTTCTATTCCAGCCCAGAATGCCATATCTCTGCAGCC
1 AAACAGTTCTATTCCAGCCCAAAATGCCATATCCCTGCAGCC
100775059 AAACAG-TCATATTCCAGCCC
1 AAACAGTTC-TATTCCAGCCC
100775079 TAGAATCCCC
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
41 2 0.04
42 55 0.96
ACGTcount: A:0.30, C:0.34, G:0.12, T:0.24
Consensus pattern (42 bp):
AAACAGTTCTATTCCAGCCCAAAATGCCATATCCCTGCAGCC
Done.