Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 238 of 250
Found at i:73504142 original size:8 final size:8
Alignment explanation
Indices: 73504129--73504171 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
73504119 TATATAAACT
73504129 ATATTTAA
1 ATATTTAA
73504137 ATATTTAA
1 ATATTTAA
73504145 ATATTT-A
1 ATATTTAA
73504152 A-ATTT-A
1 ATATTTAA
*
73504158 ATAATTAA
1 ATATTTAA
73504166 ATATTT
1 ATATTT
73504172 GTAATTAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 6 0.19
7 5 0.16
8 20 0.65
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (8 bp):
ATATTTAA
Found at i:73508778 original size:21 final size:22
Alignment explanation
Indices: 73508732--73508779 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
73508722 TTGGCGCAGG
73508732 CAAATAAACAAAAAATAAAATC
1 CAAATAAACAAAAAATAAAATC
* * *
73508754 CAAATAACCAAATAA-AAAGTC
1 CAAATAAACAAAAAATAAAATC
73508775 CAAAT
1 CAAAT
73508780 TTTAAGTCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.67, C:0.17, G:0.02, T:0.15
Consensus pattern (22 bp):
CAAATAAACAAAAAATAAAATC
Found at i:73510223 original size:34 final size:30
Alignment explanation
Indices: 73510185--73510258 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 30
73510175 TTTCTATACC
*
73510185 TTATTTTAAACCTGTTCTAGTTATTCCATATTAT
1 TTATTTTAAA-CT-TT-TAGTTA-TACATATTAT
* *
73510219 TTATTTTACACTTTTATTTATACATATTAT
1 TTATTTTAAACTTTTAGTTATACATATTAT
*
73510249 CTATTTTAAA
1 TTATTTTAAA
73510259 ATATTCATGT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
30 17 0.49
31 5 0.14
32 2 0.06
33 2 0.06
34 9 0.26
ACGTcount: A:0.30, C:0.12, G:0.03, T:0.55
Consensus pattern (30 bp):
TTATTTTAAACTTTTAGTTATACATATTAT
Found at i:73514487 original size:36 final size:36
Alignment explanation
Indices: 73514440--73514512 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
73514430 TTCAGGTTGT
73514440 ATGCCCAACGATGGAGGGAAATAGCGATGCAAGTCC
1 ATGCCCAACGATGGAGGGAAATAGCGATGCAAGTCC
*
73514476 ATGCCCAACGATTGAGGGAAATAGCGATGCAAGTCC
1 ATGCCCAACGATGGAGGGAAATAGCGATGCAAGTCC
73514512 A
1 A
73514513 ACCACCTCTC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.34, C:0.22, G:0.29, T:0.15
Consensus pattern (36 bp):
ATGCCCAACGATGGAGGGAAATAGCGATGCAAGTCC
Found at i:73516008 original size:54 final size:54
Alignment explanation
Indices: 73515941--73516044 Score: 208
Period size: 54 Copynumber: 1.9 Consensus size: 54
73515931 ATATGTAGCG
73515941 GATGATATCTCTGTCAACAAGCTCGATCGTCTAGTCAATAACATCAGCGCAGCA
1 GATGATATCTCTGTCAACAAGCTCGATCGTCTAGTCAATAACATCAGCGCAGCA
73515995 GATGATATCTCTGTCAACAAGCTCGATCGTCTAGTCAATAACATCAGCGC
1 GATGATATCTCTGTCAACAAGCTCGATCGTCTAGTCAATAACATCAGCGC
73516045 GGATAATTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (54 bp):
GATGATATCTCTGTCAACAAGCTCGATCGTCTAGTCAATAACATCAGCGCAGCA
Found at i:73528738 original size:26 final size:24
Alignment explanation
Indices: 73528709--73528757 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
73528699 CCATTTATAC
*
73528709 AATATATTTAATGAATTTATCATTTT
1 AATATATTGAAT-AATTTAT-ATTTT
73528735 AATATATTGAATAATTTATATTT
1 AATATATTGAATAATTTATATTT
73528758 GCATAATTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.18
25 7 0.32
26 11 0.50
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (24 bp):
AATATATTGAATAATTTATATTTT
Found at i:73531144 original size:23 final size:26
Alignment explanation
Indices: 73531117--73531174 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 26
73531107 ATTTAGGTGT
*
73531117 TCATTTTTAAA-TTAA-AAAAATTGA
1 TCATTTTTAAACATAAGAAAAATTGA
*
73531141 -CATTTTTAAACATAAGAAAAATTTA
1 TCATTTTTAAACATAAGAAAAATTGA
73531166 TCATTTTTA
1 TCATTTTTA
73531175 TTTCATAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 10 0.34
24 3 0.10
25 8 0.28
26 8 0.28
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (26 bp):
TCATTTTTAAACATAAGAAAAATTGA
Found at i:73532587 original size:10 final size:10
Alignment explanation
Indices: 73532542--73532592 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 10
73532532 TATTAAATAT
*
73532542 TAAAAATAT-
1 TAAAATTATA
73532551 TAAAATTGATA
1 TAAAATT-ATA
**
73532562 TAAGCTTATA
1 TAAAATTATA
73532572 -AAAATTATA
1 TAAAATTATA
73532581 TAAAATTATA
1 TAAAATTATA
73532591 TA
1 TA
73532593 TTTTAATAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
9 13 0.38
10 16 0.47
11 5 0.15
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (10 bp):
TAAAATTATA
Found at i:73536701 original size:22 final size:22
Alignment explanation
Indices: 73536676--73536744 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 22
73536666 AAGAATTTTC
73536676 AAGTTATCATTTAGATTTAATA
1 AAGTTATCATTTAGATTTAATA
* * * *
73536698 AAGTGAT--TTTCG-TTT-TTC
1 AAGTTATCATTTAGATTTAATA
*
73536716 AAGGTATCATTTAGATTTAATA
1 AAGTTATCATTTAGATTTAATA
73536738 AAGTTAT
1 AAGTTAT
73536745 TTTCATTTTC
Statistics
Matches: 33, Mismatches: 10, Indels: 8
0.65 0.20 0.16
Matches are distributed among these distances:
18 6 0.18
19 3 0.09
20 8 0.24
21 3 0.09
22 13 0.39
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.46
Consensus pattern (22 bp):
AAGTTATCATTTAGATTTAATA
Found at i:73536726 original size:40 final size:40
Alignment explanation
Indices: 73536671--73536753 Score: 139
Period size: 40 Copynumber: 2.1 Consensus size: 40
73536661 TTTAAAAGAA
* *
73536671 TTTTCAAGTTATCATTTAGATTTAATAAAGTGATTTTCGT
1 TTTTCAAGGTATCATTTAGATTTAATAAAGTGATTTTCAT
*
73536711 TTTTCAAGGTATCATTTAGATTTAATAAAGTTATTTTCAT
1 TTTTCAAGGTATCATTTAGATTTAATAAAGTGATTTTCAT
73536751 TTT
1 TTT
73536754 CTCTTTCTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.52
Consensus pattern (40 bp):
TTTTCAAGGTATCATTTAGATTTAATAAAGTGATTTTCAT
Found at i:73550211 original size:19 final size:19
Alignment explanation
Indices: 73550176--73550223 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
73550166 AAATATTTTT
*
73550176 ATAATCTTT-ATACTTTTAA
1 ATAAT-TTTAATAATTTTAA
*
73550195 ATAATTTTAATAATTTTTA
1 ATAATTTTAATAATTTTAA
*
73550214 ATTATTTTAA
1 ATAATTTTAA
73550224 AAAATTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 3 0.12
19 22 0.88
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (19 bp):
ATAATTTTAATAATTTTAA
Found at i:73553612 original size:20 final size:21
Alignment explanation
Indices: 73553566--73553628 Score: 62
Period size: 20 Copynumber: 3.0 Consensus size: 21
73553556 TTTAATGTAT
73553566 TATCA-TTTATTATTATGATTA
1 TATCATTTTATTATTAT-ATTA
73553587 T-T-ATTTTATTATTAT-TTA
1 TATCATTTTATTATTATATTA
*
73553605 TATCATTTTTATTCATCATATTA
1 TATCA-TTTTATT-ATTATATTA
73553628 T
1 T
73553629 TATATGATAG
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
18 4 0.11
19 2 0.06
20 13 0.37
21 8 0.23
22 4 0.11
23 4 0.11
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (21 bp):
TATCATTTTATTATTATATTA
Found at i:73560053 original size:6 final size:6
Alignment explanation
Indices: 73560005--73560054 Score: 55
Period size: 6 Copynumber: 8.2 Consensus size: 6
73559995 AATCAAAGTC
* * * *
73560005 AAAATG AAAATG AAAAGAG AAAAGA AAAAGA AAAAGG AAAAGG AAAAGG
1 AAAAGG AAAAGG AAAAG-G AAAAGG AAAAGG AAAAGG AAAAGG AAAAGG
73560054 A
1 A
73560055 GAGGTCAAGG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
6 34 0.85
7 6 0.15
ACGTcount: A:0.72, C:0.00, G:0.24, T:0.04
Consensus pattern (6 bp):
AAAAGG
Found at i:73560418 original size:9 final size:8
Alignment explanation
Indices: 73560401--73560426 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
73560391 GGACTTCAAG
73560401 AACAAAAA
1 AACAAAAA
73560409 AACAAAAA
1 AACAAAAA
73560417 AACAAAAA
1 AACAAAAA
73560425 AA
1 AA
73560427 GAGATGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (8 bp):
AACAAAAA
Found at i:73560448 original size:13 final size:14
Alignment explanation
Indices: 73560430--73560462 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
73560420 AAAAAAAGAG
*
73560430 ATGAAAAACGAAAA
1 ATGAAAAAAGAAAA
73560444 A-GAAAAAAGAAAA
1 ATGAAAAAAGAAAA
73560457 ATGAAA
1 ATGAAA
73560463 GAGTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.76, C:0.03, G:0.15, T:0.06
Consensus pattern (14 bp):
ATGAAAAAAGAAAA
Found at i:73561801 original size:86 final size:86
Alignment explanation
Indices: 73561677--73561898 Score: 275
Period size: 86 Copynumber: 2.6 Consensus size: 86
73561667 AGATTAGTGA
* * *
73561677 AGATAAAAAACAAAGCCTTGCCTCTATCGGTTGTAGTGGAGCTGGTTAAAGA-AGCAGATCATGC
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATA-CAGATCATGC
* * *
73561741 CTTCCTGTATTGACAGCAAAGC
65 ATTCCTGCATTAACAGCAAAGC
* * *
73561763 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAATATACAGATCTTGCA
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATACAGATCATGCA
* **
73561828 TTCCTGCGTTAACAGTGAAGC
66 TTCCTGCATTAACAGCAAAGC
* ** * *
73561849 TGATCAAAAACAAAGCCTTGCCTCCATCGACTACAGTGGAGCGGGTTAAA
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAA
73561899 ATAAAAGATC
Statistics
Matches: 117, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
86 116 0.99
87 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.24
Consensus pattern (86 bp):
AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATACAGATCATGCA
TTCCTGCATTAACAGCAAAGC
Found at i:73561929 original size:86 final size:85
Alignment explanation
Indices: 73561759--73561939 Score: 208
Period size: 86 Copynumber: 2.1 Consensus size: 85
73561749 ATTGACAGCA
* ** * * *
73561759 AAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAATATACAGATCT
1 AAGCAGATCAAAAACAAAGCCTTGCCTCCATCGACTACAGTGGAGCGGGTTAAATATAAAGATCT
*
73561824 TGCATTCCTGCGTTAACAGTG
66 T-CATTCCTGAGTTAACAGTG
*
73561845 AAGCTGATCAAAAACAAAGCCTTGCCTCCATCGACTACAGTGGAGCGGGTTAAA-ATAAAAGATC
1 AAGCAGATCAAAAACAAAGCCTTGCCTCCATCGACTACAGTGGAGCGGGTTAAATAT-AAAGATC
73561909 TT-ATCTCTCTGAAGTT-ACAGT-
65 TTCAT-TC-CTG-AGTTAACAGTG
73561930 AGAGCAGATC
1 A-AGCAGATC
73561940 GCATCAAGTC
Statistics
Matches: 81, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
84 2 0.02
85 5 0.06
86 71 0.88
87 3 0.04
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.24
Consensus pattern (85 bp):
AAGCAGATCAAAAACAAAGCCTTGCCTCCATCGACTACAGTGGAGCGGGTTAAATATAAAGATCT
TCATTCCTGAGTTAACAGTG
Found at i:73562151 original size:128 final size:128
Alignment explanation
Indices: 73561904--73562151 Score: 272
Period size: 128 Copynumber: 1.9 Consensus size: 128
73561894 TTAAAATAAA
* * * * *
73561904 AGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAATAGTAG
1 AGATCTTATCTCGCTGAAGTTACAGTAGAGAAGATCGCATCAACTCTTATCTCCATAAATAGCAG
* * ***
73561969 TGGAGCAGACAGAAGAAACCAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCAC
66 TGGAGCAGACAGAAGAAACCAAACCTATCTCCCTAAAGTTACAACAGAGCGGATTAAAACCAC
* *
73562032 AGATCTTATCTCGCTGAAGTTGCAGTAGAGAAGATCGCATTC-ACTCTTATCTCTATAACATTA-
1 AGATCTTATCTCGCTGAAGTTACAGTAGAGAAGATCGCA-TCAACTCTTATCTCCATAA-A-TAG
* * * *
73562095 CAGTGGAGCAGAC-TAA-AACCACAAACCTCA-CTCCCTGAAGTTACAACAGAGTGGATT
63 CAGTGGAGCAGACAGAAGAAAC-CAAACCT-ATCTCCCTAAAGTTACAACAGAGCGGATT
73562152 GAAGCTACAA
Statistics
Matches: 99, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
127 3 0.03
128 78 0.79
129 16 0.16
130 2 0.02
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (128 bp):
AGATCTTATCTCGCTGAAGTTACAGTAGAGAAGATCGCATCAACTCTTATCTCCATAAATAGCAG
TGGAGCAGACAGAAGAAACCAAACCTATCTCCCTAAAGTTACAACAGAGCGGATTAAAACCAC
Found at i:73562941 original size:22 final size:19
Alignment explanation
Indices: 73562890--73562941 Score: 52
Period size: 22 Copynumber: 2.6 Consensus size: 19
73562880 AGAAGGCGAG
73562890 GAGTTTCGG-CTCATTTTC
1 GAGTTTCGGCCTCATTTTC
*
73562908 GAGTCTTTGGCCTCCCATTTTGC
1 GAGT-TTCGGCCT--CATTTT-C
73562931 GAGTTTCGGCC
1 GAGTTTCGGCC
73562942 CCATATCCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
18 4 0.15
19 4 0.15
20 2 0.07
22 12 0.44
23 5 0.19
ACGTcount: A:0.10, C:0.27, G:0.25, T:0.38
Consensus pattern (19 bp):
GAGTTTCGGCCTCATTTTC
Found at i:73563599 original size:20 final size:21
Alignment explanation
Indices: 73563553--73563615 Score: 62
Period size: 20 Copynumber: 3.0 Consensus size: 21
73563543 TTTAATGTAT
73563553 TATCA-TTTATTATTATGATTA
1 TATCATTTTATTATTAT-ATTA
73563574 T-T-ATTTTATTATTAT-TTA
1 TATCATTTTATTATTATATTA
*
73563592 TATCATTTTTATTCATCATATTA
1 TATCA-TTTTATT-ATTATATTA
73563615 T
1 T
73563616 TATATGATAG
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
18 4 0.11
19 2 0.06
20 13 0.37
21 8 0.23
22 4 0.11
23 4 0.11
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (21 bp):
TATCATTTTATTATTATATTA
Found at i:73563845 original size:21 final size:21
Alignment explanation
Indices: 73563824--73563866 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
73563814 CATGCACATT
73563824 TTTATAT-ATATT-ATATATA
1 TTTATATAATATTCATATATA
*
73563843 TTTATATAATATTCATATGTA
1 TTTATATAATATTCATATATA
73563864 TTT
1 TTT
73563867 GCGCATTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.33
20 5 0.24
21 9 0.43
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
TTTATATAATATTCATATATA
Found at i:73567180 original size:3 final size:3
Alignment explanation
Indices: 73567172--73567203 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
73567162 CCAACTTTTC
*
73567172 TCA TCA TCA TCA TCA TCA TCA TCG TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
73567204 TTCTTCTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.28, C:0.34, G:0.03, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:73567879 original size:24 final size:24
Alignment explanation
Indices: 73567852--73567904 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
73567842 GATTTTGTTT
73567852 TCAATTATTGAGGTTAATCAGTAA
1 TCAATTATTGAGGTTAATCAGTAA
73567876 TCAATTATTGAGGTTAATCAGTAA
1 TCAATTATTGAGGTTAATCAGTAA
73567900 TCAAT
1 TCAAT
73567905 CTGTCCCGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (24 bp):
TCAATTATTGAGGTTAATCAGTAA
Found at i:73575795 original size:10 final size:10
Alignment explanation
Indices: 73575760--73575807 Score: 55
Period size: 10 Copynumber: 4.7 Consensus size: 10
73575750 ATTAGAAGAG
73575760 AGAAAAATAA
1 AGAAAAATAA
73575770 AGGAGAAAAT-A
1 A-GA-AAAATAA
73575781 AGAAAAATAA
1 AGAAAAATAA
73575791 AGAAATAA-AA
1 AGAAA-AATAA
73575801 AGAAAAA
1 AGAAAAA
73575808 AATTAAATAG
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
9 7 0.21
10 16 0.47
11 6 0.18
12 5 0.15
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (10 bp):
AGAAAAATAA
Found at i:73575808 original size:21 final size:21
Alignment explanation
Indices: 73575760--73575807 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
73575750 ATTAGAAGAG
*
73575760 AGAAAAATAAAGGAGAAAATA
1 AGAAAAATAAAGGAGAAAAAA
73575781 AGAAAAATAAA-GA-AATAAAA
1 AGAAAAATAAAGGAGAA-AAAA
73575801 AGAAAAA
1 AGAAAAA
73575808 AATTAAATAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 12 0.48
21 11 0.44
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (21 bp):
AGAAAAATAAAGGAGAAAAAA
Found at i:73576006 original size:29 final size:29
Alignment explanation
Indices: 73575963--73576042 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 29
73575953 AAAACGATAA
*
73575963 CGTAAGTGACTAAAATATAATATTTCAAAT
1 CGTAAGTGACTAAAATATAACATTTC-AAT
* *
73575993 -GTAAGTGACCAAAAACATAACATTTCAAT
1 CGTAAGTGA-CTAAAATATAACATTTCAAT
* *
73576022 CATAAGTGACTAAAATGTAAC
1 CGTAAGTGACTAAAATATAAC
73576043 TTGAAGCAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
29 20 0.49
30 21 0.51
ACGTcount: A:0.47, C:0.14, G:0.11, T:0.28
Consensus pattern (29 bp):
CGTAAGTGACTAAAATATAACATTTCAAT
Found at i:73580506 original size:16 final size:16
Alignment explanation
Indices: 73580485--73580553 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
73580475 TTTGGTTCGC
73580485 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
73580501 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
73580517 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
73580534 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
73580550 TGTA
1 TGTA
73580554 ATAGCTAATA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:73580531 original size:33 final size:32
Alignment explanation
Indices: 73580485--73580553 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
73580475 TTTGGTTCGC
73580485 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
73580517 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
73580550 TGTA
1 TGTA
73580554 ATAGCTAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:73580810 original size:18 final size:19
Alignment explanation
Indices: 73580789--73580825 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
73580779 TTATTATTAA
73580789 ATAT-ATTT-TAATTAAAAT
1 ATATAATTTATAA-TAAAAT
73580807 ATATAATTTATAATAAAAT
1 ATATAATTTATAATAAAAT
73580826 TCTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 10 0.59
20 3 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATAATTTATAATAAAAT
Found at i:73580932 original size:18 final size:17
Alignment explanation
Indices: 73580911--73580945 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
73580901 TTATTATTAA
*
73580911 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
73580929 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
73580946 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:73580985 original size:120 final size:120
Alignment explanation
Indices: 73580770--73581400 Score: 1050
Period size: 120 Copynumber: 5.2 Consensus size: 120
73580760 TAATCATATT
73580770 TTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTATAATAAAATTCTTAATAA
1 TTAACATAATTATTATTAAATATATTTTAATTAAAATATATAA-TT-TAATAAAATTCTTAATAA
* * *
73580835 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA
64 TTAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
73580892 TTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATT
1 TTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATT
* *
73580957 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTATAAAATATAAA
66 AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
*
73581012 TTAACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATT
1 TTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATT
* * *
73581077 AATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA
66 AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
* *
73581132 TTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATC
1 TTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATT
* *
73581197 AATATTCTTATATGAATTTACTAAAATTATAATATATGATACTATAAAATATAAT
66 AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
*
73581252 TTGAA-ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAAT-AT
1 TT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
* *
73581315 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAAT
65 T-AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
*
73581372 TTAAAATAATTATTATTAAATATAATTTT
1 TTAACATAATTATTATTAAATAT-ATTTT
73581401 TCTAAATATA
Statistics
Matches: 487, Mismatches: 18, Indels: 9
0.95 0.04 0.02
Matches are distributed among these distances:
119 4 0.01
120 431 0.89
121 9 0.02
122 43 0.09
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
TTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATT
AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
Found at i:73581172 original size:18 final size:17
Alignment explanation
Indices: 73581149--73581185 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
73581139 AATTATTATT
73581149 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
73581165 AAATATATGATTTAATA
1 AAATATATGATTTAATA
73581182 AAAT
1 AAAT
73581186 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:73581292 original size:18 final size:17
Alignment explanation
Indices: 73581269--73581305 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
73581259 AATTATTATT
73581269 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
73581285 AAATATATGATTTAATA
1 AAATATATGATTTAATA
73581302 AAAT
1 AAAT
73581306 TCTTAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:73590418 original size:39 final size:38
Alignment explanation
Indices: 73590374--73590507 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 38
73590364 ACCAATATGG
*
73590374 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAG-AATATTTGA
* * * *
73590413 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGAATATTTGA
* * *
73590450 TACCCAGTGCCTCATCGAATCTA-TCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCGGA--TAGTCCGAAG-AATAT-TTGA
*
73590491 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
73590508 ACTCGAGGTC
Statistics
Matches: 74, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
36 1 0.01
37 19 0.26
38 9 0.12
39 24 0.32
40 4 0.05
41 17 0.23
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGAATATTTGA
Found at i:73590772 original size:18 final size:19
Alignment explanation
Indices: 73590746--73590784 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
73590736 TTTCAATTCA
73590746 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
* *
73590765 ATTC-AATATTCATTATAT
1 ATTCAAATAATCAATATAT
73590783 AT
1 AT
73590785 ATCTATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:73592108 original size:5 final size:5
Alignment explanation
Indices: 73592098--73592154 Score: 62
Period size: 5 Copynumber: 11.0 Consensus size: 5
73592088 TTACTTATTT
* *
73592098 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
73592146 ATAT- ATATA
1 ATATA ATATA
73592155 TTTTAACACA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 7 0.16
7 4 0.09
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:73592114 original size:12 final size:12
Alignment explanation
Indices: 73592097--73592152 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
73592087 TTTACTTATT
73592097 TATATAATATAA
1 TATATAATATAA
73592109 TATATAATATAATA
1 TATATAATAT-A-A
73592123 TACTATAATATAA
1 TA-TATAATATAA
*
73592136 TA-ATAATTTAA
1 TATATAATATAA
73592147 TATATA
1 TATATA
73592153 TATTTTAACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 13 0.33
13 4 0.10
14 4 0.10
15 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:73592167 original size:26 final size:26
Alignment explanation
Indices: 73592099--73592154 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
73592089 TACTTATTTA
*
73592099 TATAATATAATATATAATATAATATAC
1 TATAATATAACA-ATAATATAATATAC
* *
73592126 TATAATATAATAATAATTTAATATA-
1 TATAATATAACAATAATATAATATAC
73592151 TATA
1 TATA
73592155 TTTTAACACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 4 0.14
26 12 0.43
27 12 0.43
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
TATAATATAACAATAATATAATATAC
Found at i:73598216 original size:15 final size:16
Alignment explanation
Indices: 73598196--73598229 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
73598186 ATTTAAAATC
73598196 AAACTA-AAAAAATAT
1 AAACTATAAAAAATAT
*
73598211 AAACTATAAAAAATTT
1 AAACTATAAAAAATAT
73598227 AAA
1 AAA
73598230 ATTTTATTTA
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:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (16 bp):
AAACTATAAAAAATAT
Found at i:73601316 original size:27 final size:27
Alignment explanation
Indices: 73601277--73601375 Score: 96
Period size: 27 Copynumber: 3.6 Consensus size: 27
73601267 ATTAAATATG
* *
73601277 ATTATTTTTTTAAAATTATATTTAATA
1 ATTATTATATTAAAATTATATTTAATA
73601304 ATTATTATATTAAAA-TATGA-TTAATTA
1 ATTATTATATTAAAATTAT-ATTTAA-TA
*
73601331 ATTAATTATTATT-AAATTATTTTTAATA
1 ATT-ATTA-TATTAAAATTATATTTAATA
* *
73601359 ATAATTCTATTAAAATT
1 ATTATTATATTAAAATT
73601376 TAATAACAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
26 11 0.18
27 27 0.45
28 11 0.18
29 11 0.18
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (27 bp):
ATTATTATATTAAAATTATATTTAATA
Found at i:73601364 original size:31 final size:29
Alignment explanation
Indices: 73601299--73601364 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
73601289 AAATTATATT
73601299 TAATAATTATTATATTAAAATATGATTAA
1 TAATAATTATTATATTAAAATATGATTAA
* **
73601328 T--TAATTAATTATTATTAAATTATTTTTAA
1 TAATAATT-ATTA-TATTAAAATATGATTAA
73601357 TAATAATT
1 TAATAATT
73601365 CTATTAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
27 5 0.17
28 4 0.13
29 16 0.53
31 5 0.17
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (29 bp):
TAATAATTATTATATTAAAATATGATTAA
Found at i:73603749 original size:25 final size:25
Alignment explanation
Indices: 73603704--73603753 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
73603694 GGGCAGAGTG
73603704 GAAAAGTGAAAGAATAGAAAGAAAA
1 GAAAAGTGAAAGAATAGAAAGAAAA
73603729 GAAAAGTAGAAA-AAT-GAAAAGAAAA
1 GAAAAGT-GAAAGAATAG-AAAGAAAA
73603754 TTAATTCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 1 0.04
25 18 0.78
26 4 0.17
ACGTcount: A:0.70, C:0.00, G:0.22, T:0.08
Consensus pattern (25 bp):
GAAAAGTGAAAGAATAGAAAGAAAA
Found at i:73603934 original size:7 final size:7
Alignment explanation
Indices: 73603922--73603946 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
73603912 ATATATTTTT
73603922 TTTTAAA
1 TTTTAAA
73603929 TTTTAAA
1 TTTTAAA
73603936 TTTTAAA
1 TTTTAAA
73603943 TTTT
1 TTTT
73603947 TTCTCATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (7 bp):
TTTTAAA
Found at i:73610681 original size:18 final size:18
Alignment explanation
Indices: 73610658--73610695 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
73610648 CACTAATATG
73610658 AATAAATCATGCTCTTCA
1 AATAAATCATGCTCTTCA
73610676 AATAAATCATGCTCTTCA
1 AATAAATCATGCTCTTCA
73610694 AA
1 AA
73610696 CATATTGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.32
Consensus pattern (18 bp):
AATAAATCATGCTCTTCA
Found at i:73611569 original size:23 final size:24
Alignment explanation
Indices: 73611521--73611571 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
73611511 TTAAATAATT
* *
73611521 TTTTATATAAAAATAAATATGCAA
1 TTTTAAATAAAAACAAATATGCAA
73611545 TTTTAAATAAAAACATAATA-G-AA
1 TTTTAAATAAAAACA-AATATGCAA
73611568 TTTT
1 TTTT
73611572 GATGTCTACC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.25
24 14 0.58
25 4 0.17
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.39
Consensus pattern (24 bp):
TTTTAAATAAAAACAAATATGCAA
Found at i:73621053 original size:32 final size:31
Alignment explanation
Indices: 73621018--73621080 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 31
73621008 TTCATGCACG
*
73621018 TGTGTGTGCGTG-TGTGCATATATATATTCA
1 TGTGTGCGCGTGCTGTGCATATATATATTCA
73621048 TGTGTGCGCGTGCTTGTGCATATATATATTCA
1 TGTGTGCGCGTGC-TGTGCATATATATATTCA
73621080 T
1 T
73621081 TTATGATTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 11 0.37
32 19 0.63
ACGTcount: A:0.19, C:0.13, G:0.25, T:0.43
Consensus pattern (31 bp):
TGTGTGCGCGTGCTGTGCATATATATATTCA
Found at i:73622124 original size:18 final size:18
Alignment explanation
Indices: 73622101--73622136 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
73622091 CGTTAATATC
73622101 TTGTCAGAGAATGGTCCA
1 TTGTCAGAGAATGGTCCA
73622119 TTGTCAGAGAATGGTCCA
1 TTGTCAGAGAATGGTCCA
73622137 GTAATTTACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (18 bp):
TTGTCAGAGAATGGTCCA
Found at i:73623951 original size:3 final size:3
Alignment explanation
Indices: 73623943--73623968 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
73623933 TTCCCCGTGG
73623943 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
73623969 GAGGACAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:73637003 original size:12 final size:12
Alignment explanation
Indices: 73636986--73637010 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
73636976 TTCAAGGGGG
73636986 AATGTATTAGAA
1 AATGTATTAGAA
73636998 AATGTATTAGAA
1 AATGTATTAGAA
73637010 A
1 A
73637011 CAATGAAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (12 bp):
AATGTATTAGAA
Found at i:73637855 original size:20 final size:20
Alignment explanation
Indices: 73637817--73637868 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
73637807 AGACACATGA
73637817 AAAAAAATACAATATAATACT
1 AAAAAAATA-AATATAATACT
73637838 AAAAAAAT-AATATGAATA-T
1 AAAAAAATAAATAT-AATACT
*
73637857 AATACAAATAAA
1 AA-AAAAATAAA
73637869 CCAATATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 8 0.30
20 9 0.33
21 10 0.37
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.23
Consensus pattern (20 bp):
AAAAAAATAAATATAATACT
Found at i:73637874 original size:25 final size:25
Alignment explanation
Indices: 73637827--73637875 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
73637817 AAAAAAATAC
*
73637827 AATATAATACTAAAAAAATAATATG
1 AATATAATACTAAAAAAACAATATG
*
73637852 AATATAATAC-AAATAAACCAATAT
1 AATATAATACTAAA-AAAACAATAT
73637876 TTTAAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.27
Consensus pattern (25 bp):
AATATAATACTAAAAAAACAATATG
Found at i:73639398 original size:31 final size:31
Alignment explanation
Indices: 73639363--73639423 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
73639353 TTGATTATTA
* *
73639363 AATTATTT-AAAAATTTTCATTTAATTCACTG
1 AATTATTTAAAAAAATTT-ATTTAATCCACTG
73639394 AATTATTTAAAAAAATTTATTTAATCCACT
1 AATTATTTAAAAAAATTTATTTAATCCACT
73639424 AGGTCATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 19 0.70
32 8 0.30
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.46
Consensus pattern (31 bp):
AATTATTTAAAAAAATTTATTTAATCCACTG
Found at i:73641911 original size:3 final size:3
Alignment explanation
Indices: 73641898--73641938 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
73641888 ATCTATAAAA
*
73641898 ATC ATTC ATC ATC ATC ATC ATC ATC ATC AT- ATC ATT ATC AT
1 ATC A-TC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
73641939 GAGCAAAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 29 0.85
4 3 0.09
ACGTcount: A:0.34, C:0.27, G:0.00, T:0.39
Consensus pattern (3 bp):
ATC
Found at i:73655298 original size:38 final size:38
Alignment explanation
Indices: 73655215--73655306 Score: 98
Period size: 38 Copynumber: 2.4 Consensus size: 38
73655205 TTTGGTACAA
* **
73655215 AAATTTTTATAATTATTTTTTACGAAATTTATATTTATTT
1 AAATTTTTATAA-T-TTTCTTACGAAATTTATAAATATTT
73655255 AAATTTTTATAATTTTCTTACG-AATTTATAAA-ATTTT
1 AAATTTTTATAATTTTCTTACGAAATTTATAAATA-TTT
*
73655292 ATAATTTTTTTAATT
1 A-AATTTTTATAATT
73655307 CGATATATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
36 1 0.02
37 12 0.26
38 20 0.43
39 1 0.02
40 12 0.26
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (38 bp):
AAATTTTTATAATTTTCTTACGAAATTTATAAATATTT
Found at i:73657587 original size:17 final size:18
Alignment explanation
Indices: 73657546--73657600 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 18
73657536 GAAAGTAAAT
*
73657546 AAAATTATAGAAA-AAGA
1 AAAATTATAGAAAGAACA
** *
73657563 AATTTTATTGAAAGAA-A
1 AAAATTATAGAAAGAACA
*
73657580 AAAATTATGGAAAGAACA
1 AAAATTATAGAAAGAACA
73657598 AAA
1 AAA
73657601 GACTTTTGGG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
17 24 0.80
18 6 0.20
ACGTcount: A:0.64, C:0.02, G:0.13, T:0.22
Consensus pattern (18 bp):
AAAATTATAGAAAGAACA
Found at i:73657729 original size:20 final size:20
Alignment explanation
Indices: 73657704--73657751 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
73657694 TTAAATTCTA
* *
73657704 AAAGATAAATACATTTAATT
1 AAAGATAAATAAATATAATT
*
73657724 AAAGATAATTAAATATAATT
1 AAAGATAAATAAATATAATT
73657744 AAA-ATAAA
1 AAAGATAAA
73657752 ATCCTAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (20 bp):
AAAGATAAATAAATATAATT
Found at i:73661073 original size:30 final size:29
Alignment explanation
Indices: 73661035--73661096 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
73661025 CTTTTTTTAC
73661035 TTTTTAATAATTTTAATG-ATTTTTAAAAA
1 TTTTTAAT-ATTTTAATGAATTTTTAAAAA
**
73661064 TTTTATAATATTTTTTTGAATTTTTAAAAA
1 TTTT-TAATATTTTAATGAATTTTTAAAAA
73661094 TTT
1 TTT
73661097 AAAAAAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 11 0.38
30 18 0.62
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (29 bp):
TTTTTAATATTTTAATGAATTTTTAAAAA
Found at i:73661077 original size:19 final size:19
Alignment explanation
Indices: 73661035--73661077 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
73661025 CTTTTTTTAC
* *
73661035 TTTTTAATAATTTTAATGA
1 TTTTTAAAAATTTTAATAA
73661054 TTTTTAAAAATTTT-ATAA
1 TTTTTAAAAATTTTAATAA
73661072 TATTTT
1 T-TTTT
73661078 TTTGAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
TTTTTAAAAATTTTAATAA
Found at i:73666346 original size:17 final size:18
Alignment explanation
Indices: 73666310--73666347 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
73666300 TTCTAGAAAC
*
73666310 TATGTATTTAGAACATAA
1 TATGTATTTAGAAAATAA
73666328 TATGTATTTA-AAAATAA
1 TATGTATTTAGAAAATAA
73666345 TAT
1 TAT
73666348 ACAATAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (18 bp):
TATGTATTTAGAAAATAA
Found at i:73670264 original size:21 final size:21
Alignment explanation
Indices: 73670238--73670277 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
73670228 TGCCAAGGTC
*
73670238 TCTCTTCCCTTTTTTTTTTTT
1 TCTCTTCCCTTTTTATTTTTT
*
73670259 TCTCTTTCCTTTTTATTTT
1 TCTCTTCCCTTTTTATTTT
73670278 ATCATTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.75
Consensus pattern (21 bp):
TCTCTTCCCTTTTTATTTTTT
Found at i:73691201 original size:20 final size:21
Alignment explanation
Indices: 73691150--73691203 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 21
73691140 CTATTGAATT
*
73691150 TTTTTAATATTATTAAATAATA
1 TTTTTAATA-TATCAAATAATA
73691172 TTTATTAATATATCAAATAA-A
1 TTT-TTAATATATCAAATAATA
73691193 TTTTTAATATA
1 TTTTTAATATA
73691204 ACTTTAATAC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 8 0.27
21 4 0.13
22 12 0.40
23 6 0.20
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTTTAATATATCAAATAATA
Found at i:73693874 original size:29 final size:29
Alignment explanation
Indices: 73693832--73693889 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
73693822 ATCAAGGATA
73693832 TAATGTTATTATGATTACGTGCGAAATGT
1 TAATGTTATTATGATTACGTGCGAAATGT
*
73693861 TAATGTTATTATGATTACGTGTGAAATGT
1 TAATGTTATTATGATTACGTGCGAAATGT
73693890 ATTTCAATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (29 bp):
TAATGTTATTATGATTACGTGCGAAATGT
Found at i:73696453 original size:3 final size:3
Alignment explanation
Indices: 73696439--73696475 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
73696429 TTGGTACATC
73696439 TAA TACA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
73696476 AAAAGAGAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:73697547 original size:23 final size:24
Alignment explanation
Indices: 73697520--73697566 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
73697510 TTTATATTTG
*
73697520 TATAATATTCTACAT-AAATTTTA
1 TATAATATTATACATAAAATTTTA
*
73697543 TATAATTTTATACATAAAATTTTA
1 TATAATATTATACATAAAATTTTA
73697567 ATTTCATCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (24 bp):
TATAATATTATACATAAAATTTTA
Found at i:73699680 original size:32 final size:31
Alignment explanation
Indices: 73699621--73699686 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 31
73699611 AAAAAATTAC
* * *
73699621 TTTGAGTTATTTTGAATTGAGTTATTGAATTT
1 TTTGAGTTAATTTGAATTAAGTAATTG-ATTT
73699653 TTTGAGTTAATTTGAA-TAAGTAAATTGATTT
1 TTTGAGTTAATTTGAATTAAGT-AATTGATTT
73699684 TTT
1 TTT
73699687 AAATACGAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
31 11 0.37
32 19 0.63
ACGTcount: A:0.29, C:0.00, G:0.17, T:0.55
Consensus pattern (31 bp):
TTTGAGTTAATTTGAATTAAGTAATTGATTT
Found at i:73701594 original size:18 final size:17
Alignment explanation
Indices: 73701571--73701617 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
73701561 TTTTCCTCTA
73701571 CTTTCACTTTCTTTCTTT
1 CTTTCACTTT-TTTCTTT
73701589 CTTTCACACTTTTTTCTTT
1 CTTT--CACTTTTTTCTTT
*
73701608 -TTTCTCTTTT
1 CTTTCACTTTT
73701618 ATCGTCCTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 6 0.23
18 7 0.27
19 7 0.27
20 6 0.23
ACGTcount: A:0.06, C:0.26, G:0.00, T:0.68
Consensus pattern (17 bp):
CTTTCACTTTTTTCTTT
Found at i:73701598 original size:20 final size:18
Alignment explanation
Indices: 73701575--73701611 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 18
73701565 CCTCTACTTT
73701575 CACTTTCTTTCTTTCTTTCA
1 CACTTT-TTTCTTT-TTTCA
73701595 CACTTTTTTCTTTTTTC
1 CACTTTTTTCTTTTTTC
73701612 TCTTTTATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 7 0.41
20 6 0.35
ACGTcount: A:0.08, C:0.27, G:0.00, T:0.65
Consensus pattern (18 bp):
CACTTTTTTCTTTTTTCA
Found at i:73709468 original size:27 final size:26
Alignment explanation
Indices: 73709437--73709498 Score: 101
Period size: 25 Copynumber: 2.4 Consensus size: 26
73709427 CGCCATTAAT
73709437 GTGTGGTGCCAATTAAACGGGATGAGA
1 GTGTGG-GCCAATTAAACGGGATGAGA
73709464 GTGT-GGCCAATTAAACGGGATGAGA
1 GTGTGGGCCAATTAAACGGGATGAGA
73709489 GTGT-GGCCAA
1 GTGTGGGCCAA
73709499 GGTACTCTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 30 0.86
26 1 0.03
27 4 0.11
ACGTcount: A:0.29, C:0.13, G:0.37, T:0.21
Consensus pattern (26 bp):
GTGTGGGCCAATTAAACGGGATGAGA
Found at i:73709474 original size:25 final size:25
Alignment explanation
Indices: 73709444--73709498 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
73709434 AATGTGTGGT
73709444 GCCAATTAAACGGGATGAGAGTGTG
1 GCCAATTAAACGGGATGAGAGTGTG
73709469 GCCAATTAAACGGGATGAGAGTGTG
1 GCCAATTAAACGGGATGAGAGTGTG
73709494 GCCAA
1 GCCAA
73709499 GGTACTCTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.33, C:0.15, G:0.35, T:0.18
Consensus pattern (25 bp):
GCCAATTAAACGGGATGAGAGTGTG
Found at i:73719368 original size:29 final size:30
Alignment explanation
Indices: 73719336--73719398 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
73719326 TTAAATTTTA
73719336 ATAAAAAC-TATAAAAATAGTA-AAAAAATT
1 ATAAAAACATATAAAAATA-TAGAAAAAATT
**
73719365 AT-AAAACATATAGTAATATAGAAAAAATT
1 ATAAAAACATATAAAAATATAGAAAAAATT
73719394 ATAAA
1 ATAAA
73719399 CTTTTATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
28 7 0.24
29 20 0.69
30 2 0.07
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.25
Consensus pattern (30 bp):
ATAAAAACATATAAAAATATAGAAAAAATT
Found at i:73719464 original size:22 final size:22
Alignment explanation
Indices: 73719436--73719484 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
73719426 AAAAAAATAT
73719436 AAATTTCGTAAAAGATTTATAA
1 AAATTTCGTAAAAGATTTATAA
73719458 AAATTTCGTAAAAGATTTATAA
1 AAATTTCGTAAAAGATTTATAA
73719480 AAATT
1 AAATT
73719485 ATCATACCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.37
Consensus pattern (22 bp):
AAATTTCGTAAAAGATTTATAA
Found at i:73719519 original size:11 final size:12
Alignment explanation
Indices: 73719503--73719531 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
73719493 AAAAGAAGTG
73719503 TTTTATAAT-TT
1 TTTTATAATATT
73719514 TTTTATAATATT
1 TTTTATAATATT
73719526 TTTTAT
1 TTTTAT
73719532 TTTTTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTTATAATATT
Found at i:73719746 original size:51 final size:51
Alignment explanation
Indices: 73719670--73719766 Score: 142
Period size: 51 Copynumber: 1.9 Consensus size: 51
73719660 TTAATTTTTA
*
73719670 ATACATTTTGACAGTTCAAATACTCAATT-GAGTGCAAAAAAAAAAATAATG
1 ATACATTTTGAAAGTTCAAATACTCAATTAG-GTGCAAAAAAAAAAATAATG
* * *
73719721 ATACATTTTGAAAGTTTAAATACTCAATTAGGTGTAAAAGAAAAAA
1 ATACATTTTGAAAGTTCAAATACTCAATTAGGTGCAAAAAAAAAAA
73719767 CAACAACTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
51 40 0.98
52 1 0.02
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.29
Consensus pattern (51 bp):
ATACATTTTGAAAGTTCAAATACTCAATTAGGTGCAAAAAAAAAAATAATG
Found at i:73724489 original size:95 final size:95
Alignment explanation
Indices: 73724350--73724609 Score: 454
Period size: 95 Copynumber: 2.8 Consensus size: 95
73724340 AGATAATTTC
*
73724350 AAGAAATGCTCTTTTGATCAACAATTCTAGCTCAGAAACTTGGGAAACCTACTGCTTTCTTATGC
1 AAGAAATGCTCTTTTGATCAATAATTCTAGCTCAGAAACTTGGGAAACCTACTGCTTTCTTATGC
73724415 CAAGCTAACAATTCCCCGAATAGGAAGATA
66 CAAGCTAACAATTCCCCGAATAGGAAGATA
73724445 AAGAAATGCTCTTTTGATCAATAATTCTAGCTCAGAAACTTGGGAAACCTACTGCTTTCTTATGC
1 AAGAAATGCTCTTTTGATCAATAATTCTAGCTCAGAAACTTGGGAAACCTACTGCTTTCTTATGC
73724510 CAAGCTAACAATTCCCCGAATAGGAAGATA
66 CAAGCTAACAATTCCCCGAATAGGAAGATA
* * *
73724540 ACG-AAT-CTCTTTTGATCAATAATTCTAGCTCAGAAACTTAGGG-AACCTACTGTTTTCTTATT
1 AAGAAATGCTCTTTTGATCAATAATTCTAGCTCAGAAACTT-GGGAAACCTACTGCTTTCTTATG
73724602 CCAAGCTA
65 CCAAGCTA
73724610 CTTCAACAAT
Statistics
Matches: 160, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
93 58 0.36
94 6 0.04
95 96 0.60
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (95 bp):
AAGAAATGCTCTTTTGATCAATAATTCTAGCTCAGAAACTTGGGAAACCTACTGCTTTCTTATGC
CAAGCTAACAATTCCCCGAATAGGAAGATA
Found at i:73725400 original size:2 final size:2
Alignment explanation
Indices: 73725395--73725419 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
73725385 TTAAAAAAAA
73725395 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 A
73725420 GAGTTTTTAA
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:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:73729022 original size:14 final size:14
Alignment explanation
Indices: 73728996--73729037 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
73728986 AACATAACCC
73728996 ATTA-AATATTATTA
1 ATTATAATA-TATTA
*
73729010 ATTATAATATATTT
1 ATTATAATATATTA
*
73729024 ATGATAATATATTA
1 ATTATAATATATTA
73729038 TACACATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 20 0.83
15 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (14 bp):
ATTATAATATATTA
Found at i:73735160 original size:39 final size:39
Alignment explanation
Indices: 73735095--73735205 Score: 159
Period size: 39 Copynumber: 2.8 Consensus size: 39
73735085 AATTTATCTG
* * * * *
73735095 ACGCATTTTGTAATAATTGTTGGATGATAAGTCCACTTC
1 ACGCGTTTCGTAATAATTATTAGATGATAAGTCCACCTC
* *
73735134 ACGCGTTTCGTAATGATTATTAGATGATAAGTTCACCTC
1 ACGCGTTTCGTAATAATTATTAGATGATAAGTCCACCTC
73735173 ACGCGTTTCGTAATAATTATTAGATGATAAGTC
1 ACGCGTTTCGTAATAATTATTAGATGATAAGTC
73735206 TAACATATTA
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 63 1.00
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (39 bp):
ACGCGTTTCGTAATAATTATTAGATGATAAGTCCACCTC
Found at i:73748696 original size:13 final size:13
Alignment explanation
Indices: 73748678--73748725 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
73748668 TGATTGAGTT
*
73748678 ACTAAATTATAGC
1 ACTAAATTATAGA
73748691 ACTAAATTA-A-A
1 ACTAAATTATAGA
*
73748702 ATCTAAAATATAGA
1 A-CTAAATTATAGA
73748716 ACTAAATTAT
1 ACTAAATTAT
73748726 TACACATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
11 1 0.03
12 8 0.28
13 18 0.62
14 2 0.07
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.31
Consensus pattern (13 bp):
ACTAAATTATAGA
Found at i:73749942 original size:49 final size:49
Alignment explanation
Indices: 73749870--73749968 Score: 180
Period size: 49 Copynumber: 2.0 Consensus size: 49
73749860 CTCGAATTAA
* *
73749870 CATGTCATTTCACTTATAAAACACTTTTGAGGAATTAGTTTAATACAAT
1 CATGTCATTTCACTTATAAAACACCTTCGAGGAATTAGTTTAATACAAT
73749919 CATGTCATTTCACTTATAAAACACCTTCGAGGAATTAGTTTAATACAAT
1 CATGTCATTTCACTTATAAAACACCTTCGAGGAATTAGTTTAATACAAT
73749968 C
1 C
73749969 GAAGTTCGTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.36
Consensus pattern (49 bp):
CATGTCATTTCACTTATAAAACACCTTCGAGGAATTAGTTTAATACAAT
Found at i:73750580 original size:13 final size:13
Alignment explanation
Indices: 73750562--73750602 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
73750552 AAATGACTTA
73750562 TTTTTCTTTTAAT
1 TTTTTCTTTTAAT
*
73750575 TTTTTCTTAT-AT
1 TTTTTCTTTTAAT
*
73750587 TTTTT-GTTTAAT
1 TTTTTCTTTTAAT
73750599 TTTT
1 TTTT
73750603 AATTAATCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
11 2 0.08
12 13 0.54
13 9 0.38
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (13 bp):
TTTTTCTTTTAAT
Found at i:73752660 original size:20 final size:22
Alignment explanation
Indices: 73752635--73752674 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
73752625 CATGGATATA
*
73752635 GAGATATAAT-CTTA-ATCTAG
1 GAGATAAAATGCTTATATCTAG
73752655 GAGATAAAATGCTTATATCT
1 GAGATAAAATGCTTATATCT
73752675 GTTAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 4 0.24
22 4 0.24
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (22 bp):
GAGATAAAATGCTTATATCTAG
Found at i:73757010 original size:3 final size:3
Alignment explanation
Indices: 73757002--73757029 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
73756992 ATTTAAAAAT
73757002 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
73757030 CAAATTTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:73761088 original size:17 final size:18
Alignment explanation
Indices: 73761066--73761103 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
73761056 TTAAATTTTT
73761066 TTTTTGTAATTTTTC-AA
1 TTTTTGTAATTTTTCGAA
*
73761083 TTTTTGTGATTTTTCGAA
1 TTTTTGTAATTTTTCGAA
73761101 TTT
1 TTT
73761104 CCCTTTCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.18, C:0.05, G:0.11, T:0.66
Consensus pattern (18 bp):
TTTTTGTAATTTTTCGAA
Found at i:73770275 original size:15 final size:16
Alignment explanation
Indices: 73770242--73770283 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
73770232 TAGCCTATTG
**
73770242 TTTAATTTTTGTCTCT
1 TTTAATTTTTGAATCT
73770258 TTTAATTTTTGAAT-T
1 TTTAATTTTTGAATCT
*
73770273 TTTATTTTTTG
1 TTTAATTTTTG
73770284 TCAAATCACC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.17, C:0.05, G:0.07, T:0.71
Consensus pattern (16 bp):
TTTAATTTTTGAATCT
Found at i:73770443 original size:16 final size:17
Alignment explanation
Indices: 73770414--73770468 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
73770404 ATAATAAAAA
73770414 AATAATTTTATAATTTTT
1 AATAATTTT-TAATTTTT
*
73770432 -TTAATTTTTAATAATTTT
1 AATAATTTTTAAT--TTTT
*
73770450 AATGATTTTTAATTTTT
1 AATAATTTTTAATTTTT
73770467 AA
1 AA
73770469 AAAGAATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
16 4 0.13
17 13 0.42
18 4 0.13
19 10 0.32
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (17 bp):
AATAATTTTTAATTTTT
Found at i:73770446 original size:10 final size:10
Alignment explanation
Indices: 73770414--73770462 Score: 52
Period size: 9 Copynumber: 5.3 Consensus size: 10
73770404 ATAATAAAAA
73770414 AATAA-TTTT
1 AATAATTTTT
73770423 -ATAATTTTT
1 AATAATTTTT
*
73770432 -TTAATTTTT
1 AATAATTTTT
73770441 AATAA-TTTT
1 AATAATTTTT
*
73770450 AATGATTTTT
1 AATAATTTTT
73770460 AAT
1 AAT
73770463 TTTTAAAAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
8 4 0.12
9 20 0.59
10 10 0.29
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (10 bp):
AATAATTTTT
Found at i:73770480 original size:39 final size:39
Alignment explanation
Indices: 73770434--73770510 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 39
73770424 TAATTTTTTT
*
73770434 AATTTTTAATAATTTTAATG-ATTTTT-AATTTTTAAAAAG
1 AATTTTT-ATAATTTT-ATGAATTTTTAAAATTTTAAAAAG
* *
73770473 AATTTTTATTATTTTTTGAATTTTTAAAATTTTAAAAA
1 AATTTTTATAATTTTATGAATTTTTAAAATTTTAAAAA
73770511 AATAATTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 2 0.06
38 13 0.39
39 18 0.55
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (39 bp):
AATTTTTATAATTTTATGAATTTTTAAAATTTTAAAAAG
Found at i:73771041 original size:41 final size:40
Alignment explanation
Indices: 73770996--73771085 Score: 137
Period size: 40 Copynumber: 2.2 Consensus size: 40
73770986 TAAAAAATAT
*
73770996 TTATATTAAAAAAACTACCATAAATATAATAAATGTTTTTA
1 TTATATTAAAAAAACTACCATAAATATAATAAAT-ATTTTA
*
73771037 TTATATT-AAAAAACTACTATAAATATAATAAATATTTTA
1 TTATATTAAAAAAACTACCATAAATATAATAAATATTTTA
*
73771076 TTTTATTAAA
1 TTATATTAAA
73771086 TATGAACTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
39 11 0.24
40 27 0.60
41 7 0.16
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.42
Consensus pattern (40 bp):
TTATATTAAAAAAACTACCATAAATATAATAAATATTTTA
Found at i:73771645 original size:14 final size:14
Alignment explanation
Indices: 73771626--73771652 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
73771616 AGTTATAACT
73771626 TAACAACAAAATAA
1 TAACAACAAAATAA
73771640 TAACAACAAAATA
1 TAACAACAAAATA
73771653 GTAGTAATAT
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:0.70, C:0.15, G:0.00, T:0.15
Consensus pattern (14 bp):
TAACAACAAAATAA
Found at i:73775898 original size:24 final size:21
Alignment explanation
Indices: 73775823--73775891 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 21
73775813 TTTTTATTTT
73775823 ATTTTAAATTTATTATGGTTTG
1 ATTTTAAATTTATTATGG-TTG
*
73775845 ATGTATT-AATTCTATT-TGTGTTT
1 AT-T-TTAAATT-TATTATG-GTTG
73775868 ATTTTAAATTTATTATGGTATG
1 ATTTTAAATTTATTATGGT-TG
73775890 AT
1 AT
73775892 CTCTTAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
21 8 0.21
22 12 0.32
23 11 0.29
24 7 0.18
ACGTcount: A:0.28, C:0.01, G:0.13, T:0.58
Consensus pattern (21 bp):
ATTTTAAATTTATTATGGTTG
Found at i:73778628 original size:24 final size:25
Alignment explanation
Indices: 73778601--73778649 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
73778591 TTAAAAATAA
* *
73778601 AAATGA-ACATGTGAATTTAGTGTT
1 AAATGATACATGTAAATTAAGTGTT
*
73778625 AAATGATATATGTAAATTAAGTGTT
1 AAATGATACATGTAAATTAAGTGTT
73778650 TATGTTATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.41, C:0.02, G:0.18, T:0.39
Consensus pattern (25 bp):
AAATGATACATGTAAATTAAGTGTT
Found at i:73779418 original size:20 final size:21
Alignment explanation
Indices: 73779384--73779437 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
73779374 TGATGATATT
*
73779384 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATGAGATA
73779405 -TATATTATTTTAATGAGATA
1 TTATATTATTTTAATGAGATA
*
73779425 TTTTATTATTTTA
1 TTATATTATTTTA
73779438 TTATTATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATGAGATA
Found at i:73779443 original size:11 final size:11
Alignment explanation
Indices: 73779427--73779454 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
73779417 ATGAGATATT
73779427 TTATTATTTTA
1 TTATTATTTTA
73779438 TTATTATTTTA
1 TTATTATTTTA
73779449 TTATTA
1 TTATTA
73779455 ATTATTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:73781605 original size:46 final size:46
Alignment explanation
Indices: 73781536--73782068 Score: 788
Period size: 46 Copynumber: 11.6 Consensus size: 46
73781526 GCTCTCTGAA
*
73781536 ATGAAATGTGTAAGACCATGGTTGAAAGATATCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
73781582 -TAGAAATATGTAAGACCATGGTTGAAAGATACCGTGGCAACATGAT
1 AT-GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * *
73781628 ATAAAATGTGTAAGACCATGGTTGAAAGATACTATGGCAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** *
73781674 ATGAAA-GAATAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
73781719 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAA
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
73781765 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** *
73781811 ATGAAA-GAATAAGACCATGGTTGAAAGATACCATGGCAACATGTT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
73781856 ATGAAATGT-TCAAGACCATGCTTAAAAGATACCATGGCAACCTGAT
1 ATGAAATGTGT-AAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
73781902 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
73781948 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
73781994 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
73782040 A-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATG-AAATGTGTAAGACCATGGTTGAAAGA
73782069 CACTATGACA
Statistics
Matches: 443, Mismatches: 37, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
45 83 0.19
46 358 0.81
47 2 0.00
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:73781608 original size:21 final size:21
Alignment explanation
Indices: 73781537--73781608 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
73781527 CTCTCTGAAA
*
73781537 TGAAATGTGTAAGACCATGGT
1 TGAAATATGTAAGACCATGGT
* * * * *
73781558 TGAAAGATATCATGGCAACATGAT
1 TGAAATATGT-A-AG-ACCATGGT
73781582 TAGAAATATGTAAGACCATGGT
1 T-GAAATATGTAAGACCATGGT
73781604 TGAAA
1 TGAAA
73781609 GATACCGTGG
Statistics
Matches: 36, Mismatches: 11, Indels: 8
0.65 0.20 0.15
Matches are distributed among these distances:
21 11 0.31
22 8 0.22
23 2 0.06
24 8 0.22
25 7 0.19
ACGTcount: A:0.40, C:0.10, G:0.24, T:0.26
Consensus pattern (21 bp):
TGAAATATGTAAGACCATGGT
Found at i:73781792 original size:137 final size:137
Alignment explanation
Indices: 73781546--73782068 Score: 818
Period size: 137 Copynumber: 3.8 Consensus size: 137
73781536 ATGAAATGTG
* *
73781546 TAAGACCATGGTTGAAAGATATCATGGCAACATGAT-TAGAAATATGTAAGACCATGGTTGAAAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATAT-GAAATGTGTAAGACCATGGTTGAAAG
* * *
73781610 ATACCGTGGCAACATGATATAAAATGTGTAAGACCATGGTTGAAAGATACTATGGCAACGTGACA
65 ATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACA
73781675 TGAAAGAA
130 TGAAAGAA
*
73781683 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
*
73781748 TACCATGGCAACATGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACAT
66 TACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACAT
73781813 GAAAGAA
131 GAAAGAA
* * *
73781820 TAAGACCATGGTTGAAAGATACCATGGCAACATGTTATGAAATGT-TCAAGACCATGCTTAAAAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGT-AAGACCATGGTTGAAAG
* * *
73781884 ATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATA
65 ATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACA
**
73781949 TGAAATGTG
130 TGAAA-GAA
*
73781958 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
* * *
73782023 TACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
66 TACCATGGCAACATGATATG-AAATGTGTAAGACCATGGTTGAAAGA
73782069 CACTATGACA
Statistics
Matches: 356, Mismatches: 25, Indels: 9
0.91 0.06 0.02
Matches are distributed among these distances:
136 1 0.00
137 253 0.71
138 101 0.28
139 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (137 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
TACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACAT
GAAAGAA
Found at i:73781873 original size:183 final size:183
Alignment explanation
Indices: 73781531--73782058 Score: 794
Period size: 183 Copynumber: 2.9 Consensus size: 183
73781521 AGTGTGCTCT
* * * *
73781531 CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATATCATGGCAACATG-ATTAGAAATATGTAA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAAAT-GAAATGTGTAA
* *
73781595 GACCATGGTTGAAAGATACCGTGGCAACATGATATAAAATGTGTAAGACCATGGTTGAAAGATAC
65 GACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATAC
* * * *
73781660 TATGGCAACGTGACATGAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
130 CATGGCAACATGACATGAAAGAATAAGACCATGCTTAAAAGATACCATGGCAAC
73781714 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAAATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAAATGAAATGTGTAAG
* * **
73781779 ACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA-GAATAAGACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
** *
73781843 ATGGCAACATGTTATGAAATG-TTCAAGACCATGCTTAAAAGATACCATGGCAAC
131 ATGGCAACATGACATGAAA-GAAT-AAGACCATGCTTAAAAGATACCATGGCAAC
* *
73781897 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAAATGAAATGTGTAAG
*
73781962 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
*
73782027 ATGGCAACATGACA-GAAAATGAGTAAGACCAT
131 ATGGCAACATGACATG-AAA-GAATAAGACCAT
73782059 AGTTGAAAGA
Statistics
Matches: 313, Mismatches: 26, Indels: 11
0.89 0.07 0.03
Matches are distributed among these distances:
182 40 0.13
183 221 0.71
184 51 0.16
185 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (183 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAAATGAAATGTGTAAG
ACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
ATGGCAACATGACATGAAAGAATAAGACCATGCTTAAAAGATACCATGGCAAC
Found at i:73783439 original size:5 final size:5
Alignment explanation
Indices: 73783429--73783462 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
73783419 GATAATATGA
73783429 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
73783463 CGTAGGCTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:73789455 original size:21 final size:21
Alignment explanation
Indices: 73789431--73789476 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
73789421 TTCCATCACT
*
73789431 AGAACTTGAATTTCCTCCACC
1 AGAACTTGAAGTTCCTCCACC
*
73789452 AGAACTTGAAGTTCCTCCACT
1 AGAACTTGAAGTTCCTCCACC
73789473 AGAA
1 AGAA
73789477 ACACTAGGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (21 bp):
AGAACTTGAAGTTCCTCCACC
Found at i:73793128 original size:9 final size:10
Alignment explanation
Indices: 73793109--73793133 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
73793099 TTTTATTTAA
73793109 TTTTTGTTTT
1 TTTTTGTTTT
73793119 TTTTTGTTTT
1 TTTTTGTTTT
73793129 TTTTT
1 TTTTT
73793134 CATTCTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (10 bp):
TTTTTGTTTT
Found at i:73793429 original size:22 final size:21
Alignment explanation
Indices: 73793359--73793432 Score: 69
Period size: 21 Copynumber: 3.3 Consensus size: 21
73793349 AAAAATGATA
*
73793359 TATTTTTAATATATTAATTTTTT
1 TATTTTTAATAT-TTAA-ATTTT
* *
73793382 TATTTTTTCAA-ATTTATATTTA
1 TA-TTTTT-AATATTTAAATTTT
73793404 TATTTTTAATATTTAAATTGTT
1 TATTTTTAATATTTAAATT-TT
73793426 TATTTTT
1 TATTTTT
73793433 TGTTTACCAA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
20 2 0.05
21 13 0.31
22 13 0.31
23 5 0.12
24 7 0.17
25 2 0.05
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.68
Consensus pattern (21 bp):
TATTTTTAATATTTAAATTTT
Found at i:73793548 original size:71 final size:71
Alignment explanation
Indices: 73793469--73793603 Score: 189
Period size: 71 Copynumber: 1.9 Consensus size: 71
73793459 TTAGGTTCAA
* * * * * * *
73793469 AATAAGCACTAATATTATAATAATAAATGTTAGTATCAGCATCAGTAACATGAAATGAGCAGCAG
1 AATAAGCACTAATACTACAATAATAAATATCAATATCAGCACCAGTAACATGAAACGAGCAGCAG
73793534 TAACAC
66 TAACAC
* *
73793540 AATAAGCACTAGTACTACAATAATAAATATCAATATCAGCACCAGTAACATGAGACGAGCAGCA
1 AATAAGCACTAATACTACAATAATAAATATCAATATCAGCACCAGTAACATGAAACGAGCAGCA
73793604 ACACCATGAT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
71 55 1.00
ACGTcount: A:0.47, C:0.17, G:0.14, T:0.22
Consensus pattern (71 bp):
AATAAGCACTAATACTACAATAATAAATATCAATATCAGCACCAGTAACATGAAACGAGCAGCAG
TAACAC
Found at i:73802832 original size:37 final size:37
Alignment explanation
Indices: 73802786--73802865 Score: 151
Period size: 37 Copynumber: 2.2 Consensus size: 37
73802776 AATGATGTTA
*
73802786 ATGCCTAAGTTAATCTAAAGTAAGTTTATAAACACAT
1 ATGCATAAGTTAATCTAAAGTAAGTTTATAAACACAT
73802823 ATGCATAAGTTAATCTAAAGTAAGTTTATAAACACAT
1 ATGCATAAGTTAATCTAAAGTAAGTTTATAAACACAT
73802860 ATGCAT
1 ATGCAT
73802866 GTAATGGTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.33
Consensus pattern (37 bp):
ATGCATAAGTTAATCTAAAGTAAGTTTATAAACACAT
Found at i:73805777 original size:22 final size:23
Alignment explanation
Indices: 73805740--73805785 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
73805730 TACACATGCA
*
73805740 TTTTTCATATTAATA-TATATATG
1 TTTTTAATATTAATATTAT-TATG
73805763 TTTTTAATATT-ATATTATTATG
1 TTTTTAATATTAATATTATTATG
73805785 T
1 T
73805786 ATATGTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (23 bp):
TTTTTAATATTAATATTATTATG
Found at i:73805804 original size:30 final size:28
Alignment explanation
Indices: 73805746--73805802 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
73805736 TGCATTTTTC
73805746 ATATTAATATATATATGTTTTTAATATT
1 ATATTAATATATATATGTTTTTAATATT
* *
73805774 ATATTATTATGTATATG-TTTTAATATT
1 ATATTAATATATATATGTTTTTAATATT
73805801 AT
1 AT
73805803 TAGCTATCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 12 0.44
28 15 0.56
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (28 bp):
ATATTAATATATATATGTTTTTAATATT
Found at i:73806222 original size:27 final size:28
Alignment explanation
Indices: 73806192--73806253 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
73806182 GATGTTATAT
* *
73806192 TATATATGCATTTTTTTATATATTA-TG
1 TATATATACATTTTTTAATATATTATTG
* * *
73806219 TATATATATATTTTTTAATATTTTATTT
1 TATATATACATTTTTTAATATATTATTG
73806247 TATATAT
1 TATATAT
73806254 CATGCATATA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 21 0.72
28 8 0.28
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (28 bp):
TATATATACATTTTTTAATATATTATTG
Found at i:73806297 original size:20 final size:19
Alignment explanation
Indices: 73806260--73806301 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
73806250 ATATCATGCA
73806260 TATATTTTGAATACTATAT
1 TATATTTTGAATACTATAT
* *
73806279 TATATTTTTACATATTATAT
1 TATATTTTGA-ATACTATAT
73806299 TAT
1 TAT
73806302 GTATATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (19 bp):
TATATTTTGAATACTATAT
Found at i:73813315 original size:15 final size:15
Alignment explanation
Indices: 73813297--73813355 Score: 84
Period size: 15 Copynumber: 3.9 Consensus size: 15
73813287 GAAGCCCAGA
*
73813297 ATAAAGAAATCCAAG
1 ATAAGGAAATCCAAG
73813312 ATAAGGAAATCCATA-
1 ATAAGGAAATCCA-AG
*
73813327 ATAAGGAAATCCATG
1 ATAAGGAAATCCAAG
73813342 ATAAGGAAATCCAA
1 ATAAGGAAATCCAA
73813356 TTTACAGCAC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
15 38 0.97
16 1 0.03
ACGTcount: A:0.54, C:0.14, G:0.15, T:0.17
Consensus pattern (15 bp):
ATAAGGAAATCCAAG
Found at i:73813330 original size:30 final size:30
Alignment explanation
Indices: 73813296--73813354 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
73813286 AGAAGCCCAG
73813296 AATAAAGAAATCCAAGATAAGGAAATCCAT
1 AATAAAGAAATCCAAGATAAGGAAATCCAT
* *
73813326 AATAAGGAAATCCATGATAAGGAAATCCA
1 AATAAAGAAATCCAAGATAAGGAAATCCA
73813355 ATTTACAGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.54, C:0.14, G:0.15, T:0.17
Consensus pattern (30 bp):
AATAAAGAAATCCAAGATAAGGAAATCCAT
Found at i:73821167 original size:24 final size:25
Alignment explanation
Indices: 73821140--73821190 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
73821130 GTGAGACAGA
73821140 GTTT-GAGTGATTCCAGACTCCCCT
1 GTTTGGAGTGATTCCAGACTCCCCT
73821164 GTTTGGAGTGATTCCAGACTCCCCT
1 GTTTGGAGTGATTCCAGACTCCCCT
73821189 GT
1 GT
73821191 CTCAAATTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 4 0.15
25 22 0.85
ACGTcount: A:0.16, C:0.27, G:0.24, T:0.33
Consensus pattern (25 bp):
GTTTGGAGTGATTCCAGACTCCCCT
Found at i:73827478 original size:20 final size:20
Alignment explanation
Indices: 73827455--73827492 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
73827445 GGTCTTTAGT
* *
73827455 GGCCTTTGTCTATACTTGAG
1 GGCCTTTGCCTAGACTTGAG
73827475 GGCCTTTGCCTAGACTTG
1 GGCCTTTGCCTAGACTTG
73827493 GGTGGTCTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.24, G:0.26, T:0.37
Consensus pattern (20 bp):
GGCCTTTGCCTAGACTTGAG
Found at i:73829217 original size:20 final size:20
Alignment explanation
Indices: 73829194--73829231 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
73829184 GGTCTTTAGT
* *
73829194 GGCCTTTGTCTATACTTGAG
1 GGCCTTTGCCTAGACTTGAG
73829214 GGCCTTTGCCTAGACTTG
1 GGCCTTTGCCTAGACTTG
73829232 GGTGGTCTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.24, G:0.26, T:0.37
Consensus pattern (20 bp):
GGCCTTTGCCTAGACTTGAG
Found at i:73830958 original size:20 final size:20
Alignment explanation
Indices: 73830935--73830972 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
73830925 GGTCTTTAGT
* *
73830935 GGCCTTTGTCTATACTTGAG
1 GGCCTTTGCCTAGACTTGAG
73830955 GGCCTTTGCCTAGACTTG
1 GGCCTTTGCCTAGACTTG
73830973 GGTGGTCTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.24, G:0.26, T:0.37
Consensus pattern (20 bp):
GGCCTTTGCCTAGACTTGAG
Found at i:73846171 original size:21 final size:21
Alignment explanation
Indices: 73846138--73846184 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
73846128 CCCTAAATTA
*
73846138 TAAACCTTGAACTCAAAACCC
1 TAAACCTTAAACTCAAAACCC
* *
73846159 TAAATCTTAAACTCCAAACCC
1 TAAACCTTAAACTCAAAACCC
*
73846180 AAAAC
1 TAAAC
73846185 ATGAATCTTA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.47, C:0.32, G:0.02, T:0.19
Consensus pattern (21 bp):
TAAACCTTAAACTCAAAACCC
Found at i:73846609 original size:2 final size:2
Alignment explanation
Indices: 73846602--73846629 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
73846592 GCAAGCAAAT
73846602 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
73846630 AACCATTCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:73847645 original size:23 final size:20
Alignment explanation
Indices: 73847619--73847667 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 20
73847609 AAAAAATTGA
*
73847619 AAATTTTAACTTTATTTTATAGT
1 AAATTATAA-TTT-TTTTA-AGT
*
73847642 AAATGATAATTTTTTTAAGT
1 AAATTATAATTTTTTTAAGT
73847662 AAATTA
1 AAATTA
73847668 CAAAAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 8 0.35
21 5 0.22
22 3 0.13
23 7 0.30
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (20 bp):
AAATTATAATTTTTTTAAGT
Found at i:73876387 original size:35 final size:35
Alignment explanation
Indices: 73876347--73876509 Score: 211
Period size: 35 Copynumber: 4.7 Consensus size: 35
73876337 CATGGAAAAT
*
73876347 TTGTGAAACGTAGGTATGGTATCATCCATACTGAG
1 TTGTGAAACGTAGGTATGGTATTATCCATACTGAG
* *
73876382 TTGTGAAAGGTAGGTATGGTATTAACCATACTGAG
1 TTGTGAAACGTAGGTATGGTATTATCCATACTGAG
*
73876417 TTGTGAAACGGAGGTATGGTATTATCCATACTGAG
1 TTGTGAAACGTAGGTATGGTATTATCCATACTGAG
** ** *
73876452 TTAAGAAACGTAGGTATGACATT-TCTCATACCGAG
1 TTGTGAAACGTAGGTATGGTATTATC-CATACTGAG
* *
73876487 TTGTAAAATGTAGGTATGGTATT
1 TTGTGAAACGTAGGTATGGTATT
73876510 TCAATGAGGA
Statistics
Matches: 109, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
34 2 0.02
35 107 0.98
ACGTcount: A:0.31, C:0.11, G:0.26, T:0.33
Consensus pattern (35 bp):
TTGTGAAACGTAGGTATGGTATTATCCATACTGAG
Found at i:73877898 original size:35 final size:35
Alignment explanation
Indices: 73877867--73877954 Score: 124
Period size: 35 Copynumber: 2.5 Consensus size: 35
73877857 CGTACCTATA
73877867 TTTCACAACTCAGTATGGGAAATGCCATACCTACG
1 TTTCACAACTCAGTATGGGAAATGCCATACCTACG
* * *
73877902 TTCCATC-ACTCGGTATGGGAAATGTCATACCTACG
1 TTTCA-CAACTCAGTATGGGAAATGCCATACCTACG
*
73877937 TTTCACAACTCAGCATGG
1 TTTCACAACTCAGTATGG
73877955 TTTTCTTTAC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
34 1 0.02
35 43 0.96
36 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.27
Consensus pattern (35 bp):
TTTCACAACTCAGTATGGGAAATGCCATACCTACG
Found at i:73879946 original size:21 final size:21
Alignment explanation
Indices: 73879922--73879965 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
73879912 TTATATATGA
*
73879922 TTAATTAAGC-TTTATTTAATC
1 TTAATTAA-CTTTTAATTAATC
73879943 TTAATTAACTTTTAATTAATC
1 TTAATTAACTTTTAATTAATC
73879964 TT
1 TT
73879966 TTCTTATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (21 bp):
TTAATTAACTTTTAATTAATC
Found at i:73881774 original size:25 final size:25
Alignment explanation
Indices: 73881735--73881784 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
73881725 TATGACCTGT
73881735 TAGGCCAATACGAGCCTAAAGAGGA
1 TAGGCCAATACGAGCCTAAAGAGGA
73881760 TAGGCCAAT-CTGAGCCTAAAGAGGA
1 TAGGCCAATAC-GAGCCTAAAGAGGA
73881785 ACTAACGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 1 0.04
25 23 0.96
ACGTcount: A:0.38, C:0.20, G:0.28, T:0.14
Consensus pattern (25 bp):
TAGGCCAATACGAGCCTAAAGAGGA
Done.