Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 5 of 207
Found at i:1609674 original size:22 final size:23
Alignment explanation
Indices: 1609634--1609677 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
1609624 CGAAATTAAT
*
1609634 AAAATAAATAATAAAATAATGAG
1 AAAAGAAATAATAAAATAATGAG
1609657 AAAAGAAATAA-AAAATAATGA
1 AAAAGAAATAATAAAATAATGA
1609678 CAATAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (23 bp):
AAAAGAAATAATAAAATAATGAG
Found at i:1609699 original size:17 final size:17
Alignment explanation
Indices: 1609662--1609702 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
1609652 ATGAGAAAAG
*
1609662 AAATAAAAAATAATGAC
1 AAATAAAAAATAATCAC
1609679 -AATAAAAAA-AATACAC
1 AAATAAAAAATAAT-CAC
1609695 AAATAAAA
1 AAATAAAA
1609703 GAGTATAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 3 0.14
16 11 0.52
17 7 0.33
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.15
Consensus pattern (17 bp):
AAATAAAAAATAATCAC
Found at i:1611805 original size:16 final size:16
Alignment explanation
Indices: 1611784--1611815 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1611774 TAATGTGTTT
*
1611784 TGCTGCTGTTGTTTAA
1 TGCTGCTATTGTTTAA
1611800 TGCTGCTATTGTTTAA
1 TGCTGCTATTGTTTAA
1611816 ATGCAGAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.12, G:0.22, T:0.50
Consensus pattern (16 bp):
TGCTGCTATTGTTTAA
Found at i:1611997 original size:45 final size:45
Alignment explanation
Indices: 1611929--1612192 Score: 420
Period size: 45 Copynumber: 5.9 Consensus size: 45
1611919 AAGAGGTGGA
** * * *
1611929 CAACATCATGCATAATTTGTGGAACAAATTAAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1611974 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
*
1612019 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1612064 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* *
1612109 CAACATCATGCATAATTCATGGAAGAATTTAAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* * * *
1612154 CAACATCATGCATAATTTAAGGAACAAATTGAGGAAGCA
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCA
1612193 CCATGGCCGA
Statistics
Matches: 205, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 205 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.26
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
Found at i:1615741 original size:16 final size:16
Alignment explanation
Indices: 1615720--1615751 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1615710 TAATGTGTTT
1615720 TGCTGCTGTTGTTTAA
1 TGCTGCTGTTGTTTAA
1615736 TGCTGCTGTTGTTTAA
1 TGCTGCTGTTGTTTAA
1615752 ATGCAGAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.25, T:0.50
Consensus pattern (16 bp):
TGCTGCTGTTGTTTAA
Found at i:1615933 original size:45 final size:45
Alignment explanation
Indices: 1615865--1616128 Score: 420
Period size: 45 Copynumber: 5.9 Consensus size: 45
1615855 AAGAGGTGGA
** * * *
1615865 CAACATCATGCATAATTTGTGGAACAAATTAAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1615910 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
*
1615955 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1616000 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* *
1616045 CAACATCATGCATAATTCATGGAAGAATTTAAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* * * *
1616090 CAACATCATGCATAATTTAAGGAACAAATTGAGGAAGCA
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCA
1616129 CCATGGCCGA
Statistics
Matches: 205, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 205 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.26
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
Found at i:1627905 original size:2 final size:2
Alignment explanation
Indices: 1627894--1627939 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
1627884 TTCTTAATTA
1627894 TC TC -C TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1627935 TC TC T
1 TC TC T
1627940 TTGGACCCTT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1630606 original size:110 final size:112
Alignment explanation
Indices: 1630452--1630839 Score: 567
Period size: 111 Copynumber: 3.5 Consensus size: 112
1630442 CAAATTTTTT
1630452 TTTATTTTTTATTCGTGTCAGAATCAGATAAAAAAATAC-AAAAAAA-AAAAAAATTTGGGTGCT
1 TTTATTTTTT-TTCGTGTCAGAATCAGATAAAAAAATACGAAAAAAATAAAAAAATTTGGGTGCT
1630515 GGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAGAAAAAAAAAA
65 GGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAGAAAAAAAAAA
*
1630563 TTTATTTTTTTTCGTGTCAGAATCAGATAAAAAAATACGAAAAAAAATTAAAAAAAATT-GGTGC
1 TTTATTTTTTTTCGTGTCAGAATCAGATAAAAAAATACG-AAAAAAA-TAAAAAAATTTGGGTGC
*
1630627 TGGCCTGTCAATGGCCGGCACCAAGTACACAGTACAAAG--AAAAAAAA
64 TGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAGAAAAAAAAAA
*
1630674 -TTATTTTTTTTCGTGCCAGAATCAGAT-AAAAAATACGAAAAAAATAAATAAAAAATTTGGGTG
1 TTTATTTTTTTTCGTGTCAGAATCAGATAAAAAAATACGAAAAAAAT--A-AAAAAATTTGGGTG
*******
1630737 CTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAGAAATTTTTTT
63 CTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAGAAAAAAAAAA
*
1630787 TTTATTTTTTTTCGTGTCAGGATCAGATAAAAAAATACG-AAAAAATAAAAAAA
1 TTTATTTTTTTTCGTGTCAGAATCAGATAAAAAAATACGAAAAAAATAAAAAAA
1630840 AATTCTTTAT
Statistics
Matches: 251, Mismatches: 14, Indels: 24
0.87 0.05 0.08
Matches are distributed among these distances:
107 1 0.00
108 7 0.03
109 11 0.04
110 62 0.25
111 67 0.27
112 8 0.03
113 44 0.18
114 41 0.16
115 10 0.04
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.27
Consensus pattern (112 bp):
TTTATTTTTTTTCGTGTCAGAATCAGATAAAAAAATACGAAAAAAATAAAAAAATTTGGGTGCTG
GCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAGAAAAAAAAAA
Found at i:1630619 original size:224 final size:222
Alignment explanation
Indices: 1630388--1630843 Score: 611
Period size: 224 Copynumber: 2.0 Consensus size: 222
1630378 AAAAAAACAA
* * * *****
1630388 AAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCTGGCACCCAGTAGACAGTAC-AA-ATTTTT
1 AAAAAAAAA-TTTT-GGTGCTGGCCTGTCAATGGCCGGCACCAAGTACACAGTACAAAGAAAAAA
** *
1630451 TTTTATTTTTTATTCGTGTCAGAATCAGATAAAAAAATAC-AAAAA-AAA-AAAAAATTTGGGTG
64 AATTATTTTTT-TTCGTGCCAGAATCAGAT-AAAAAATACAAAAAATAAATAAAAAATTTGGGTG
1630513 CTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAGAAAAAAAAAATTTATTTTTTTTCGT
127 CTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAGAAAAAAAAAATTTATTTTTTTTCGT
1630578 GTCAGAATCAGATAAAAAAATACGAAAAAA-
192 GTCAGAATCAGATAAAAAAATACGAAAAAAT
*
1630608 AATTAAAAAAA-ATTGGTGCTGGCCTGTCAATGGCCGGCACCAAGTACACAGTACAAAGAAAAAA
1 AA--AAAAAAATTTTGGTGCTGGCCTGTCAATGGCCGGCACCAAGTACACAGTACAAAGAAAAAA
1630672 AATTATTTTTTTTCGTGCCAGAATCAGATAAAAAATACGAAAAAAATAAATAAAAAATTTGGGTG
64 AATTATTTTTTTTCGTGCCAGAATCAGATAAAAAATAC--AAAAAATAAATAAAAAATTTGGGTG
*******
1630737 CTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAGAAATTTTTTTTTTATTTTTTTTCGT
127 CTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAGAAAAAAAAAATTTATTTTTTTTCGT
*
1630802 GTCAGGATCAGATAAAAAAATACGAAAAAAT
192 GTCAGAATCAGATAAAAAAATACGAAAAAAT
1630833 AAAAAAAAATT
1 AAAAAAAAATT
1630844 CTTTATACTG
Statistics
Matches: 204, Mismatches: 21, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
219 46 0.23
220 23 0.11
221 10 0.05
222 12 0.06
223 10 0.05
224 101 0.50
225 2 0.01
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.27
Consensus pattern (222 bp):
AAAAAAAAATTTTGGTGCTGGCCTGTCAATGGCCGGCACCAAGTACACAGTACAAAGAAAAAAAA
TTATTTTTTTTCGTGCCAGAATCAGATAAAAAATACAAAAAATAAATAAAAAATTTGGGTGCTGG
CCTGTCAATGGCCGGCACCCAGTACACAGTACAAAGAAAAAAAAAATTTATTTTTTTTCGTGTCA
GAATCAGATAAAAAAATACGAAAAAAT
Found at i:1630749 original size:111 final size:110
Alignment explanation
Indices: 1630453--1630843 Score: 560
Period size: 110 Copynumber: 3.5 Consensus size: 110
1630443 AAATTTTTTT
1630453 TTATTTTTTATTCGTGTCAGAATCAGATAAAAAAATAC--AAAAA-AAAAAAAAATTTGGGTGCT
1 TTATTTTTT-TTCGTGTCAGAATCAGATAAAAAAATACGAAAAAATAAAAAAAAATTTGGGTGCT
1630515 GGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAGAAAAAAAAAA
65 GGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAG--AAAAAAAA
*
1630563 TTTATTTTTTTTCGTGTCAGAATCAGATAAAAAAATACGAAAAAA-AATTAAAAAAAATT-GGTG
1 -TTATTTTTTTTCGTGTCAGAATCAGATAAAAAAATACGAAAAAATAA--AAAAAAATTTGGGTG
*
1630626 CTGGCCTGTCAATGGCCGGCACCAAGTACACAGTACAAAGAAAAAAAA
63 CTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAGAAAAAAAA
*
1630674 TTATTTTTTTTCGTGCCAGAATCAGAT-AAAAAATACGAAAAAAATAAATAAAAAATTTGGGTGC
1 TTATTTTTTTTCGTGTCAGAATCAGATAAAAAAATACG-AAAAAATAAA-AAAAAATTTGGGTGC
*****
1630738 TGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAGAAATTTTTTTT
64 TGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAGAAA---AAAAA
*
1630788 TTATTTTTTTTCGTGTCAGGATCAGATAAAAAAATACGAAAAAATAAAAAAAAATT
1 TTATTTTTTTTCGTGTCAGAATCAGATAAAAAAATACGAAAAAATAAAAAAAAATT
1630844 CTTTATACTG
Statistics
Matches: 256, Mismatches: 12, Indels: 22
0.88 0.04 0.08
Matches are distributed among these distances:
109 11 0.04
110 68 0.27
111 65 0.25
112 7 0.03
113 51 0.20
114 44 0.17
115 10 0.04
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.27
Consensus pattern (110 bp):
TTATTTTTTTTCGTGTCAGAATCAGATAAAAAAATACGAAAAAATAAAAAAAAATTTGGGTGCTG
GCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAGAAAAAAAA
Found at i:1630958 original size:112 final size:113
Alignment explanation
Indices: 1630842--1631362 Score: 836
Period size: 112 Copynumber: 4.6 Consensus size: 113
1630832 TAAAAAAAAA
* *
1630842 TTCTTTATACTGTGTACTGGGTGCCGGCCATTGACAAGCCAGCACCCAAAATTTTTTTTTATTTT
1 TTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTATTTT
1630907 TTTCGTA-TTTTTTATCTGATTCTGACACGAAAAAAAATAAATTTTTT
66 TTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAATAAATTTTTT
*
1630954 TTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA-ATTTTTTTATTTT
1 TTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTA-TTT
* *
1631018 TTTTCTTATTTTTTTATCTGATTCTGACA-GGAAAAAAATAAATTTTTTT
65 TTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAATAAA-TTTTTT
* * **
1631067 TTCTTTGTATTGTGTACTGGGTGCCGGCCATTGACAAGCCAGCACCCAAAAATTTTTTTAAAATT
1 TTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC-AAAATTTTTTT-TTATT
*
1631132 TTTTTCGTATTTTTTTATCTGATTCTGACAC-AAAAAAAATAATTTTTTT
64 TTTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAATAAATTTTTT
*
1631181 TTCTTTGTACTGTGTACTAGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTATTTT
1 TTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTATTTT
* *
1631246 TTTTGTAATTTTTTATCTGATTCTGACACGAAAAAAAAT-AATTTTTT
66 TTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAATAAATTTTTT
*
1631293 TTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTTGTTT
1 TTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA-TTTTTTTTTATTT
1631358 TTTTC
65 TTTTC
1631363 TTTTTTGTAT
Statistics
Matches: 376, Mismatches: 24, Indels: 17
0.90 0.06 0.04
Matches are distributed among these distances:
111 8 0.02
112 160 0.43
113 107 0.28
114 54 0.14
115 46 0.12
116 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.43
Consensus pattern (113 bp):
TTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTATTTT
TTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAATAAATTTTTT
Found at i:1631352 original size:227 final size:225
Alignment explanation
Indices: 1630842--1631362 Score: 852
Period size: 227 Copynumber: 2.3 Consensus size: 225
1630832 TAAAAAAAAA
*
1630842 TTCTTTATACTGTGTACTGGGTGCCGGCCATTGACAAGCCAGCACCCAAAATTTTTTTTTATTTT
1 TTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAAGCCAGCACCCAAAATTTTTTTTTATTTT
1630907 TTTCGTATTTTTTATCTGATTCTGACACGAAAAAAAATAAATTTTTTTTCTTTGTACTGTGTACT
66 TTTCGTATTTTTTATCTGATTCTGACACGAAAAAAAATAAATTTTTTTTCTTTGTACTGTGTACT
* * *
1630972 GGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTATTTTTTTTCTTATTTTTTTATCT
131 AGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTATTTTTTTTCGTAATTTTTTATCT
*
1631037 GATTCTGACAGGAAAAAAATAAATTTTTTT
196 GATTCTGACAGAAAAAAAATAAATTTTTTT
* **
1631067 TTCTTTGTATTGTGTACTGGGTGCCGGCCATTGACAAGCCAGCACCCAAAAATTTTTTTAAAATT
1 TTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAAGCCAGCACCC-AAAATTTTTTT-TTATT
*
1631132 TTTTTCGTATTTTTTTATCTGATTCTGACAC-AAAAAAAATAATTTTTTTTTCTTTGTACTGTGT
64 TTTTTCGTA-TTTTTTATCTGATTCTGACACGAAAAAAAATAAATTTTTTTTCTTTGTACTGTGT
*
1631196 ACTAGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTATTTTTTTT-GTAATTTTTT
128 ACTAGGTGCCGGCCATTGACAGGCCAGCACCCAAAA-ATTTTTTTATTTTTTTTCGTAATTTTTT
1631260 ATCTGATTCTGACACGAAAAAAAAT-AA-TTTTTT
192 ATCTGATTCTGACA-GAAAAAAAATAAATTTTTTT
* *
1631293 TTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTTGTTT
1 TTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAAGCCAGCACCCAAAA-TTTTTTTTTATTT
1631358 TTTTC
65 TTTTC
1631363 TTTTTTGTAT
Statistics
Matches: 275, Mismatches: 15, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
225 57 0.21
226 69 0.25
227 103 0.37
228 46 0.17
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.43
Consensus pattern (225 bp):
TTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAAGCCAGCACCCAAAATTTTTTTTTATTTT
TTTCGTATTTTTTATCTGATTCTGACACGAAAAAAAATAAATTTTTTTTCTTTGTACTGTGTACT
AGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTATTTTTTTTCGTAATTTTTTATCT
GATTCTGACAGAAAAAAAATAAATTTTTTT
Found at i:1631861 original size:24 final size:25
Alignment explanation
Indices: 1631831--1631878 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
1631821 AAATGCTAAA
*
1631831 TAATTTA-ATTAAA-ATTAGTATAAG
1 TAATTTATAATAAATATTA-TATAAG
1631855 TAATTTATAATAAATATTATATAA
1 TAATTTATAATAAATATTATATAA
1631879 TTTAGTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 7 0.33
25 10 0.48
26 4 0.19
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (25 bp):
TAATTTATAATAAATATTATATAAG
Found at i:1631898 original size:20 final size:19
Alignment explanation
Indices: 1631829--1631898 Score: 52
Period size: 20 Copynumber: 3.3 Consensus size: 19
1631819 ATAAATGCTA
1631829 AATAATTTAATTAAAATTAGTAT
1 AATAATTT-ATT-AAA-TA-TAT
1631852 AAGTAATTTATAATAAATAT-T
1 AA-TAATTTAT--TAAATATAT
1631873 ATATAATTTAGTTAAATATAT
1 A-ATAATTTA-TTAAATATAT
1631894 AATAA
1 AATAA
1631899 GTCAAAATGT
Statistics
Matches: 41, Mismatches: 0, Indels: 15
0.73 0.00 0.27
Matches are distributed among these distances:
20 11 0.27
21 11 0.27
22 3 0.07
23 6 0.15
24 9 0.22
25 1 0.02
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (19 bp):
AATAATTTATTAAATATAT
Found at i:1644784 original size:15 final size:15
Alignment explanation
Indices: 1644757--1644790 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1644747 GGTATAAAAT
*
1644757 AAAT-AAAGTAATAA
1 AAATAAAAGAAATAA
1644771 AAATAAAAGAAATAA
1 AAATAAAAGAAATAA
1644786 AAATA
1 AAATA
1644791 CTAGATGCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (15 bp):
AAATAAAAGAAATAA
Found at i:1644879 original size:3 final size:3
Alignment explanation
Indices: 1644873--1644906 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
1644863 AAGATAAAAA
*
1644873 AAT AAT -AT AAT AAC AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1644907 ATGAGTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:1654197 original size:2 final size:2
Alignment explanation
Indices: 1654190--1654240 Score: 59
Period size: 2 Copynumber: 25.5 Consensus size: 2
1654180 ATCTTATTCT
* * *
1654190 TA TA TA TA TA TA CA TCA TT TG T- TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA
1654232 TA TA TA TA T
1 TA TA TA TA T
1654241 CATCCTTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
1 1 0.02
2 40 0.93
3 2 0.05
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1655436 original size:20 final size:20
Alignment explanation
Indices: 1655407--1655465 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
1655397 AACCCATCAG
*
1655407 GGTTTGAGGTTTAAGATTCA
1 GGTTTAAGGTTTAAGATTCA
* *
1655427 GGTTTAAGGTTTACGATTTA
1 GGTTTAAGGTTTAAGATTCA
* *
1655447 GAGTTTAGGGTTTTAGATT
1 G-GTTTAAGGTTTAAGATT
1655466 TGGGGTTCAT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 18 0.56
21 14 0.44
ACGTcount: A:0.24, C:0.03, G:0.29, T:0.44
Consensus pattern (20 bp):
GGTTTAAGGTTTAAGATTCA
Found at i:1656588 original size:16 final size:17
Alignment explanation
Indices: 1656560--1656596 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
1656550 ATGCTAATGG
1656560 CAATCGAACTAAAACT-
1 CAATCGAACTAAAACTA
1656576 CAATC-AACATAAAACTA
1 CAATCGAAC-TAAAACTA
1656593 CAAT
1 CAAT
1656597 TTTTAGATCC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 3 0.16
16 12 0.63
17 4 0.21
ACGTcount: A:0.54, C:0.24, G:0.03, T:0.19
Consensus pattern (17 bp):
CAATCGAACTAAAACTA
Found at i:1657288 original size:4 final size:4
Alignment explanation
Indices: 1657279--1657338 Score: 56
Period size: 4 Copynumber: 15.5 Consensus size: 4
1657269 CGAGCCTTTG
*
1657279 TTTA TTTA TTTA TTTA TTT- TATTA TTTA -TTA -TTA -TTA TTTTG TTTA
1 TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA -TTTA TTTA
*
1657325 TTCA TTTA TTTA TT
1 TTTA TTTA TTTA TT
1657339 ACTCCTTTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
3 10 0.21
4 35 0.73
5 3 0.06
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:1659031 original size:2 final size:2
Alignment explanation
Indices: 1659024--1659048 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1659014 TGGAGATTTG
1659024 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1659049 ATTTACCTGA
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:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1662835 original size:17 final size:17
Alignment explanation
Indices: 1662813--1662846 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1662803 CATTACCTTT
1662813 ATTATGTGACATACACA
1 ATTATGTGACATACACA
1662830 ATTATGTGACATACACA
1 ATTATGTGACATACACA
1662847 TAGCATCTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (17 bp):
ATTATGTGACATACACA
Found at i:1673290 original size:26 final size:26
Alignment explanation
Indices: 1673238--1673290 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
1673228 TAAATCCTAA
* *
1673238 ATTATAAAAATAATATTTTATAAATG
1 ATTATAAAAATAATATCTGATAAATG
* * *
1673264 ATTATTAAAATTATATCTGATATATG
1 ATTATAAAAATAATATCTGATAAATG
1673290 A
1 A
1673291 AATTATTAGC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (26 bp):
ATTATAAAAATAATATCTGATAAATG
Found at i:1676151 original size:15 final size:15
Alignment explanation
Indices: 1676133--1676188 Score: 60
Period size: 16 Copynumber: 3.6 Consensus size: 15
1676123 ATTATTTTAT
1676133 ATTTAAGTTTAGATC
1 ATTTAAGTTTAGATC
*
1676148 ATTTCAGATTTAGATC
1 ATTTAAG-TTTAGATC
1676164 GA-TTAGAGTTTAGATC
1 -ATTTA-AGTTTAGATC
*
1676180 ATTCAAGTT
1 ATTTAAGTT
1676189 GAGTCATAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
15 11 0.32
16 20 0.59
17 3 0.09
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (15 bp):
ATTTAAGTTTAGATC
Found at i:1676161 original size:16 final size:16
Alignment explanation
Indices: 1676133--1676182 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
1676123 ATTATTTTAT
1676133 ATTTA-AGTTTAGATC
1 ATTTAGAGTTTAGATC
1676148 ATTTCAGA-TTTAGATC
1 ATTT-AGAGTTTAGATC
1676164 GA-TTAGAGTTTAGATC
1 -ATTTAGAGTTTAGATC
1676180 ATT
1 ATT
1676183 CAAGTTGAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
15 8 0.27
16 20 0.67
17 2 0.07
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (16 bp):
ATTTAGAGTTTAGATC
Found at i:1679188 original size:24 final size:25
Alignment explanation
Indices: 1679153--1679211 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 25
1679143 TAAGATGATT
*
1679153 ATATAA-AAAAATTCAATAAATA-AA
1 ATATAATATAAATT-AATAAATATAA
* *
1679177 ATAT-ATATAAATTATTAAATATTA
1 ATATAATATAAATTAATAAATATAA
1679201 ATATAATATAA
1 ATATAATATAA
1679212 TATAAATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 8 0.28
24 15 0.52
25 6 0.21
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.36
Consensus pattern (25 bp):
ATATAATATAAATTAATAAATATAA
Found at i:1679219 original size:11 final size:11
Alignment explanation
Indices: 1679167--1679220 Score: 50
Period size: 10 Copynumber: 5.5 Consensus size: 11
1679157 AAAAAAATTC
1679167 AATA-AATA-A
1 AATATAATATA
1679176 AATAT-ATATA
1 AATATAATATA
1679186 AAT-T-AT-TA
1 AATATAATATA
1679194 AATATTAATAT-
1 AATA-TAATATA
1679205 AATATAATATA
1 AATATAATATA
1679216 AATAT
1 AATAT
1679221 TTATAAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
8 5 0.13
9 10 0.26
10 11 0.29
11 11 0.29
12 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
AATATAATATA
Found at i:1679234 original size:40 final size:37
Alignment explanation
Indices: 1679167--1679243 Score: 91
Period size: 40 Copynumber: 2.0 Consensus size: 37
1679157 AAAAAAATTC
** *
1679167 AATAAATAAAATATATATAAATTATTAAATATTAATAT
1 AATAAATAAAATATATATAAAAAATTAAA-AATAATAT
*
1679205 AATATAATATAAATATTTATAAAAAATTAAAAATAATAT
1 AATA-AATA-AAATATATATAAAAAATTAAAAATAATAT
1679244 GGGCAGGCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
38 4 0.12
39 11 0.33
40 18 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (37 bp):
AATAAATAAAATATATATAAAAAATTAAAAATAATAT
Found at i:1685200 original size:16 final size:17
Alignment explanation
Indices: 1685166--1685207 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
1685156 TAAAGGTTTT
*
1685166 TTTTTAAATACATATTA
1 TTTTTAAATACATAATA
*
1685183 TTTTTATATA-ATAATA
1 TTTTTAAATACATAATA
1685199 TTTTTAAAT
1 TTTTTAAAT
1685208 TAAAACATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTTTAAATACATAATA
Found at i:1689299 original size:19 final size:19
Alignment explanation
Indices: 1689275--1689315 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
1689265 GCTTTGTGTC
1689275 AATATATATATAATTAAAA
1 AATATATATATAATTAAAA
* * *
1689294 AATATATTTTTATTTAAAA
1 AATATATATATAATTAAAA
1689313 AAT
1 AAT
1689316 TAATTCAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AATATATATATAATTAAAA
Found at i:1693392 original size:17 final size:18
Alignment explanation
Indices: 1693372--1693408 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
1693362 TTCTCATTTT
1693372 TTAAAAAATTA-ATAAAA
1 TTAAAAAATTATATAAAA
1693389 TT-AAAAATTATATAAAA
1 TTAAAAAATTATATAAAA
1693406 TTA
1 TTA
1693409 TTATTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TTAAAAAATTATATAAAA
Found at i:1719259 original size:19 final size:20
Alignment explanation
Indices: 1719224--1719267 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
1719214 ATTTAAACTA
*
1719224 AATTTTATAACTATTTT-AT
1 AATTTTATAACAATTTTAAT
1719243 AATTTTATAA-AACTTTTAAT
1 AATTTTATAACAA-TTTTAAT
1719263 AATTT
1 AATTT
1719268 ATTTGATAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 14 0.64
20 7 0.32
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.55
Consensus pattern (20 bp):
AATTTTATAACAATTTTAAT
Found at i:1719266 original size:20 final size:19
Alignment explanation
Indices: 1719224--1719267 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
1719214 ATTTAAACTA
*
1719224 AATTTTATAACTATTTTAT
1 AATTTTATAACTATTTAAT
1719243 AATTTTATAAAACT-TTTAAT
1 AATTTTAT--AACTATTTAAT
1719263 AATTT
1 AATTT
1719268 ATTTGATAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 10 0.45
21 4 0.18
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.55
Consensus pattern (19 bp):
AATTTTATAACTATTTAAT
Found at i:1720777 original size:199 final size:196
Alignment explanation
Indices: 1720419--1721025 Score: 869
Period size: 199 Copynumber: 3.1 Consensus size: 196
1720409 AAGCCCCCCT
** * **
1720419 GGTACTTCCTTTTTTGATGATTTTCTAAATTACCTGTAAACCTGAACTAATTAAATTTGATGATA
1 GGTACTT-CTTTTTTGACAATTTTCTAAACTACCTGTAAACCCAAACTAATTAAATTTGATGATA
* * * *
1720484 TTATGTACTTAATTGTGCTAGAATCCACAATCTCCAAGTTGCTGCAATAGCAATGCTTGAATAAT
65 TTACGCACTTAAGTGTGCTCGAATCCACAATCTCCAAGTTGCTGCAATAGC-ATGCTTGAATAAT
* * *
1720549 TTGAAATTTGGGTTATTGG-TTTCCTGTGTAAACATTAGAGGAACCCTTTTTTTGAAGTAGAGCG
129 TTGAAA-TTGGGTTATTGGTTTTGCTGTGT-AACATTAGAGGAA-CCTTATTTTGAAGTAGAACG
1720613 ATGGTC
191 ATGGTC
* * *
1720619 AGTACTTCTTTTTTGACAATTTTCTAAACTACCCGTAAACCCAAACTAATTAAATTTGATGATAC
1 GGTACTTCTTTTTTGACAATTTTCTAAACTACCTGTAAACCCAAACTAATTAAATTTGATGATAT
* *
1720684 TACACACTTAAGTGTGCTCGAATCCACAACCTCCAAGTTGCTGCAATAGCTATGCTTGAATAATT
66 TACGCACTTAAGTGTGCTCGAATCCACAATCTCCAAGTTGCTGCAATAGC-ATGCTTGAATAATT
*
1720749 TGAAATTGGGTTTTTGGTTTTGCTGTGTAACATTAGAGGAACCTTATTTTGAAGTAGAACGATGG
130 TGAAATTGGGTTATTGGTTTTGCTGTGTAACATTAGAGGAACCTTATTTTGAAGTAGAACGATGG
1720814 TC
195 TC
*
1720816 GGTACTTCTTTTTTTTTTGACAA--TTCTAAACTACCTGTAAACCCAAGCTAATTAAATTTGATG
1 GGTACTTC----TTTTTTGACAATTTTCTAAACTACCTGTAAACCCAAACTAATTAAATTTGATG
* * **
1720879 ATATTACGCAGTTAAGCGTGCTCGAATCCACAATCTCTGAGTTGCTGCAATAGCAGTGCTTGAAT
62 ATATTACGCACTTAAGTGTGCTCGAATCCACAATCTCCAAGTTGCTGCAATAGCA-TGCTTGAAT
1720944 AATTTGAAATTGGGTTATTGGTTTTGCTGTGTAACATTAGAGGAACCTTATTTTGAAGTAGAACG
126 AATTTGAAATTGGGTTATTGGTTTTGCTGTGTAACATTAGAGGAACCTTATTTTGAAGTAGAACG
**
1721009 ACAGTC
191 ATGGTC
1721015 GGTACTTCTTT
1 GGTACTTCTTT
1721026 ATAGAGGCTT
Statistics
Matches: 369, Mismatches: 32, Indels: 17
0.88 0.08 0.04
Matches are distributed among these distances:
195 3 0.01
197 31 0.08
198 25 0.07
199 293 0.79
200 6 0.02
201 11 0.03
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (196 bp):
GGTACTTCTTTTTTGACAATTTTCTAAACTACCTGTAAACCCAAACTAATTAAATTTGATGATAT
TACGCACTTAAGTGTGCTCGAATCCACAATCTCCAAGTTGCTGCAATAGCATGCTTGAATAATTT
GAAATTGGGTTATTGGTTTTGCTGTGTAACATTAGAGGAACCTTATTTTGAAGTAGAACGATGGT
C
Found at i:1725322 original size:29 final size:29
Alignment explanation
Indices: 1725275--1725333 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
1725265 ATAAAAAGAT
* * *
1725275 TTCATTAAATAGTATAGGGGTTAAATTGA
1 TTCATTAAATAATAGAGGGGCTAAATTGA
* *
1725304 TTCATTTAATAATAGAGGGGCTAATTTGA
1 TTCATTAAATAATAGAGGGGCTAAATTGA
1725333 T
1 T
1725334 ACGGTCCCTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.36, C:0.05, G:0.20, T:0.39
Consensus pattern (29 bp):
TTCATTAAATAATAGAGGGGCTAAATTGA
Found at i:1729126 original size:16 final size:15
Alignment explanation
Indices: 1729108--1729161 Score: 69
Period size: 16 Copynumber: 3.7 Consensus size: 15
1729098 TAAATTCTCA
1729108 AAAAATAAAAAATTC
1 AAAAATAAAAAATTC
*
1729123 AAAAATATATAAATTC
1 AAAAATA-AAAAATTC
1729139 AAAAAT---AAATTC
1 AAAAATAAAAAATTC
1729151 AAAAATAAAAA
1 AAAAATAAAAA
1729162 TAATTAAACA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
12 12 0.35
15 9 0.26
16 13 0.38
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (15 bp):
AAAAATAAAAAATTC
Found at i:1729148 original size:12 final size:12
Alignment explanation
Indices: 1729131--1729159 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
1729121 TCAAAAATAT
1729131 ATAAATTCAAAA
1 ATAAATTCAAAA
1729143 ATAAATTCAAAA
1 ATAAATTCAAAA
1729155 ATAAA
1 ATAAA
1729160 AATAATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (12 bp):
ATAAATTCAAAA
Found at i:1732997 original size:181 final size:179
Alignment explanation
Indices: 1732662--1733110 Score: 522
Period size: 179 Copynumber: 2.5 Consensus size: 179
1732652 GTTTCTTTCA
* * *
1732662 AATTT-TCATTGCAATGCATAAGTAGAGCAAGCTGT-TAACTAACAATGTGCATCGTGATCGATC
1 AATTTCTCAGTGCAATGCATAAGTAGAGGAAGCTGTGTAACTAACAATGTACATCGTGATCGATC
* * * *
1732725 ATTCTTGATCAATTTGCGTGCTGTTTTTTGAATCTGATTTAAGTATTTTTTCAATTTTTTAAGAG
66 ATTGTTGATCAAATTGCATGCT-ATTTTTGAATCTGATTTAAGTATTTTTTCAATTTTTTAAGAG
* * *
1732790 AAAAGGGAGAAAAAAGAGGAATAGTGTT-TTTTTTTTTGCTTCTTTATTCC
130 AAAAGAGAGAAAAAAGAGGAATAGTGTTGATTTTTCTT-CTTCTTTATTCC
* *
1732840 AATTTCTCAGTGCAATGCATGAGTAGAGGAAGCTGTGTAACTAACAGTGTACATCGTGATCGATC
1 AATTTCTCAGTGCAATGCATAAGTAGAGGAAGCTGTGTAACTAACAATGTACATCGTGATCGATC
* ** * *
1732905 ATTGTTTATCAAATTGCATGCTATTTTT-AAT-TTTTTTAAAGTTTTTTTTTTGTTAA-TTTTTA
66 ATTGTTGATCAAATTGCATGCTATTTTTGAATCTGATTT-AAG---TATTTTT-TCAATTTTTTA
*
1732967 ATG-GAAAA-AGAGGAAAAAAGAGGAATAGTGTTGATTTTTCTTCTTCTTTATTTC
126 A-GAGAAAAGAGA-GAAAAAAGAGGAATAGTGTTGATTTTTCTTCTTCTTTATTCC
* * * * *
1733021 AATTTCTAAGTGCAATGCATAAGCAGAGGAAGC--CGTAAGTAACAATGTACATCGTGATCTATC
1 AATTTCTCAGTGCAATGCATAAGTAGAGGAAGCTGTGTAACTAACAATGTACATCGTGATCGATC
* *
1733084 ATTGTCGATCAAGTTGCATGCTATTTT
66 ATTGTTGATCAAATTGCATGCTATTTT
1733111 ATTTTATGCT
Statistics
Matches: 233, Mismatches: 28, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
177 4 0.02
178 11 0.05
179 82 0.35
180 46 0.20
181 79 0.34
182 11 0.05
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (179 bp):
AATTTCTCAGTGCAATGCATAAGTAGAGGAAGCTGTGTAACTAACAATGTACATCGTGATCGATC
ATTGTTGATCAAATTGCATGCTATTTTTGAATCTGATTTAAGTATTTTTTCAATTTTTTAAGAGA
AAAGAGAGAAAAAAGAGGAATAGTGTTGATTTTTCTTCTTCTTTATTCC
Found at i:1733226 original size:186 final size:180
Alignment explanation
Indices: 1732662--1733226 Score: 521
Period size: 179 Copynumber: 3.1 Consensus size: 180
1732652 GTTTCTTTCA
* * * * *
1732662 AATTT-TCATTGCAATGCATAAGTAGAGCAAGCTG-TTAACTAACAATGTGCATCGTGATCGATC
1 AATTTCTCAGTGCAATGCATAAGCAGAGGAAGC-GCGTAACTAACAATGTACATCGTGATCGATC
* * * * * * *
1732725 ATTCTTGATCAATTTGCGTGCTGTTTTTTGAATCTGATT-T-AAG--TATTTTTTC--AATTTTT
65 ATTGTCGATCAAATTGCATGCT-ATTTTT-AAT-T-TTTCTAAAGTTTTTTTTTTCTAAATTTTT
* **
1732784 TAAGAGAAAAG-GGAGAAAAAAGAGGAATAGTGTTTTTTTTTTTGCTTCTTT-ATTCC
126 TAAGGGAAAAGAGGA-AAAAAAGAGGAATAGTGTTGATTTTTTT-CTTCTTTAATT-C
* * * *
1732840 AATTTCTCAGTGCAATGCATGAGTAGAGGAAGCTGTGTAACTAACAGTGTACATCGTGATCGATC
1 AATTTCTCAGTGCAATGCATAAGCAGAGGAAGC-GCGTAACTAACAATGTACATCGTGATCGATC
** * * *
1732905 ATTGTTTATCAAATTGCATGCTATTTTTAATTTTTTTAAAGTTTTTTTTTTGTTAA-TTTTTAAT
65 ATTGTCGATCAAATTGCATGCTATTTTTAATTTTTCTAAAGTTTTTTTTTTCTAAATTTTTTAA-
* *
1732969 GGAAAAAGAGG-AAAAAAGAGGAATAGTGTTGATTTTTCTTCTTCTTTATTTC
129 GGGAAAAGAGGAAAAAAAGAGGAATAGTGTTGATTTTT-TTCTTCTTTAATTC
* * *
1733021 AATTTCTAAGTGCAATGCATAAGCAGAGGAAGC-CGTAAGTAACAATGTACATCGTGATCTATCA
1 AATTTCTCAGTGCAATGCATAAGCAGAGGAAGCGCGTAACTAACAATGTACATCGTGATCGATCA
* ****
1733085 TTGTCGATCAAGTTGCATGCTA-TTTT-ATTTTATGCTCTCTTTTTTATCTGTTTCTAAAATTTT
66 TTGTCGATCAAATTGCATGCTATTTTTAATTTT-T-CTAAAGTTTTT-T-T-TTTCT-AAA-TTT
*
1733148 TTTAAGGGAAAAGGAGGAAAAAAAGAGGAATAGTGTTGATTCTTTTTCCTCTTTAATTC
124 TTTAAGGGAAAA-GAGGAAAAAAAGAGGAATAGTGTTGATT-TTTTTCTTCTTTAATTC
*
1733207 AATTTCTCAGTGTAATGCAT
1 AATTTCTCAGTGCAATGCAT
1733227 GAGTGCATTG
Statistics
Matches: 323, Mismatches: 41, Indels: 38
0.80 0.10 0.09
Matches are distributed among these distances:
176 2 0.01
177 7 0.02
178 16 0.05
179 83 0.26
180 52 0.16
181 70 0.22
182 16 0.05
183 4 0.01
184 6 0.02
185 11 0.03
186 53 0.16
187 3 0.01
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.41
Consensus pattern (180 bp):
AATTTCTCAGTGCAATGCATAAGCAGAGGAAGCGCGTAACTAACAATGTACATCGTGATCGATCA
TTGTCGATCAAATTGCATGCTATTTTTAATTTTTCTAAAGTTTTTTTTTTCTAAATTTTTTAAGG
GAAAAGAGGAAAAAAAGAGGAATAGTGTTGATTTTTTTCTTCTTTAATTC
Found at i:1736384 original size:4 final size:4
Alignment explanation
Indices: 1736375--1736409 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
1736365 AAACCCTTGA
* *
1736375 ATGC ATGC ATGC ATGT ATGG ATGC ATGC ATGC ATG
1 ATGC ATGC ATGC ATGC ATGC ATGC ATGC ATGC ATG
1736410 TATATATATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (4 bp):
ATGC
Found at i:1736400 original size:20 final size:20
Alignment explanation
Indices: 1736375--1736412 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1736365 AAACCCTTGA
1736375 ATGCATGCATGCATGTATGG
1 ATGCATGCATGCATGTATGG
1736395 ATGCATGCATGCATGTAT
1 ATGCATGCATGCATGTAT
1736413 ATATATGATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (20 bp):
ATGCATGCATGCATGTATGG
Found at i:1736425 original size:13 final size:14
Alignment explanation
Indices: 1736403--1736438 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
1736393 GGATGCATGC
1736403 ATGCATGTATATAT
1 ATGCATGTATATAT
*
1736417 ATG-ATGTATATGT
1 ATGCATGTATATAT
1736430 ATGCATGTA
1 ATGCATGTA
1736439 ATCAACCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.42
Consensus pattern (14 bp):
ATGCATGTATATAT
Found at i:1736741 original size:32 final size:32
Alignment explanation
Indices: 1736700--1736767 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
1736690 TTTATAAAAG
1736700 TTTGTTTTTTTTCCCTTCTCGTTATTTGTTCA
1 TTTGTTTTTTTTCCCTTCTCGTTATTTGTTCA
1736732 TTTGTTTTTTTTCCCTTCTCGTTATTTGTTCA
1 TTTGTTTTTTTTCCCTTCTCGTTATTTGTTCA
1736764 TTTG
1 TTTG
1736768 CTATTAAACT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.06, C:0.18, G:0.10, T:0.66
Consensus pattern (32 bp):
TTTGTTTTTTTTCCCTTCTCGTTATTTGTTCA
Found at i:1741584 original size:10 final size:10
Alignment explanation
Indices: 1741571--1741633 Score: 51
Period size: 10 Copynumber: 6.4 Consensus size: 10
1741561 AAAATATTTT
1741571 AAAATTAAAA
1 AAAATTAAAA
1741581 AAAATTAAAA
1 AAAATTAAAA
* *
1741591 AAGTATTTTAAA
1 AA--AATTAAAA
**
1741603 AAAATT--TT
1 AAAATTAAAA
1741611 AAAATT-AAA
1 AAAATTAAAA
1741620 AAAATTAAAA
1 AAAATTAAAA
1741630 AAAA
1 AAAA
1741634 GTATTTTAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
8 6 0.14
9 6 0.14
10 22 0.52
12 8 0.19
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (10 bp):
AAAATTAAAA
Found at i:1741594 original size:40 final size:41
Alignment explanation
Indices: 1741521--1741644 Score: 189
Period size: 40 Copynumber: 3.0 Consensus size: 41
1741511 ACTAAAAATT
1741521 TATTTTAAAAATTAAAACAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATT-AAA-AAAAATTAAAAAAAGTATTTTAAAAA
1741565 TATTTTAAAATTAAAAAAAATT-AAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAAATTAAAAAAAGTATTTTAAAAA
*
1741605 AATTTTAAAATT-AAAAAAATTAAAAAAAAGTATTTTAAAA
1 TATTTTAAAATTAAAAAAAATT-AAAAAAAGTATTTTAAAA
1741645 TTAAAATTAA
Statistics
Matches: 77, Mismatches: 1, Indels: 7
0.91 0.01 0.08
Matches are distributed among these distances:
39 9 0.12
40 29 0.38
41 24 0.31
42 3 0.04
43 6 0.08
44 6 0.08
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (41 bp):
TATTTTAAAATTAAAAAAAATTAAAAAAAGTATTTTAAAAA
Found at i:1741617 original size:30 final size:29
Alignment explanation
Indices: 1741581--1741650 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 29
1741571 AAAATTAAAA
**
1741581 AAAATTAAAAAAGTATTTTAAAAAA-ATTTT
1 AAAATTAAAAAA--ATTAAAAAAAAGATTTT
1741611 AAAATTAAAAAAATTAAAAAAAAGTATTTT
1 AAAATTAAAAAAATTAAAAAAAAG-ATTTT
1741641 AAAATTAAAA
1 AAAATTAAAA
1741651 TTAAAAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
28 9 0.25
30 27 0.75
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (29 bp):
AAAATTAAAAAAATTAAAAAAAAGATTTT
Found at i:1747588 original size:19 final size:18
Alignment explanation
Indices: 1747566--1747626 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 18
1747556 GAAATAAAAT
1747566 TTAAATATTAAATAATTTA
1 TTAAATATT-AATAATTTA
*
1747585 TTAAA-AATAATAAATTATA
1 TTAAATATTAAT-AATT-TA
1747604 TTAATTATATTAATAATTTA
1 TTAA--ATATTAATAATTTA
1747624 TTA
1 TTA
1747627 TATTATTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
17 3 0.09
18 6 0.17
19 11 0.31
20 5 0.14
21 5 0.14
22 5 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TTAAATATTAATAATTTA
Found at i:1747721 original size:10 final size:9
Alignment explanation
Indices: 1747692--1747717 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
1747682 ATTTTATATT
1747692 AATATTTTA
1 AATATTTTA
1747701 AATATTTTA
1 AATATTTTA
1747710 AATATTTT
1 AATATTTT
1747718 TAAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
AATATTTTA
Found at i:1756919 original size:2 final size:2
Alignment explanation
Indices: 1756912--1756939 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1756902 GTATCCTCAC
1756912 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1756940 GGATGTCAGT
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):
AT
Found at i:1758357 original size:21 final size:23
Alignment explanation
Indices: 1758331--1758378 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
1758321 TTTTAAGAAG
*
1758331 ATTATAAA-ATTATA-AAAAAAT
1 ATTATAAATAATATATAAAAAAT
1758352 ATTATAAATAATATATAAAAAAT
1 ATTATAAATAATATATAAAAAAT
1758375 -TTAT
1 ATTAT
1758379 TTTAAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 8 0.33
22 9 0.38
23 7 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
ATTATAAATAATATATAAAAAAT
Found at i:1758966 original size:25 final size:23
Alignment explanation
Indices: 1758913--1758962 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
1758903 TATGAGAGTG
* *
1758913 AATACTCATTTTTATATAATTAA
1 AATATTCATTTTTATATAATAAA
1758936 AATATTCATATTTTATATTAA-AAA
1 AATATTCAT-TTTTATA-TAATAAA
1758960 AAT
1 AAT
1758963 TATTATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 8 0.35
24 12 0.52
25 3 0.13
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (23 bp):
AATATTCATTTTTATATAATAAA
Found at i:1759811 original size:37 final size:37
Alignment explanation
Indices: 1759747--1759840 Score: 107
Period size: 37 Copynumber: 2.5 Consensus size: 37
1759737 ATTTTTGGAG
* * * * *
1759747 AGAATTGTTACTGTTGATCTTCGTCTTTTTTTTACAA
1 AGAATTGTTACTATTCATCTCCATCTTTTCTTTACAA
* *
1759784 AGAATTGTTACTATTCATCTCCATCTTTTCTTTGCAG
1 AGAATTGTTACTATTCATCTCCATCTTTTCTTTACAA
**
1759821 AGAATCATTACTATTCATCT
1 AGAATTGTTACTATTCATCT
1759841 ATGTCTTTTG
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.24, C:0.18, G:0.11, T:0.47
Consensus pattern (37 bp):
AGAATTGTTACTATTCATCTCCATCTTTTCTTTACAA
Found at i:1761034 original size:17 final size:17
Alignment explanation
Indices: 1761012--1761044 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1761002 TAATATTCTA
1761012 TTTT-AATATTATAATAT
1 TTTTAAATATTA-AATAT
1761029 TTTTAAATATTAAATA
1 TTTTAAATATTAAATA
1761045 AAAAAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTTAAATATTAAATAT
Found at i:1761039 original size:18 final size:21
Alignment explanation
Indices: 1760995--1761044 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
1760985 AAGAATATTG
*
1760995 AATATTATAATATTCTATTTT
1 AATATTATAATATTCTATTTA
1761016 AATATTATAATA-T-T-TTTA
1 AATATTATAATATTCTATTTA
1761034 AATATTA-AATA
1 AATATTATAATA
1761045 AAAAAATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 4 0.14
18 10 0.36
19 1 0.04
20 1 0.04
21 12 0.43
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
AATATTATAATATTCTATTTA
Found at i:1768961 original size:28 final size:29
Alignment explanation
Indices: 1768929--1768985 Score: 107
Period size: 28 Copynumber: 2.0 Consensus size: 29
1768919 TTGTGTGATT
1768929 CGATTTTTTTACTG-TTTTTTTACAATGA
1 CGATTTTTTTACTGTTTTTTTTACAATGA
1768957 CGATTTTTTTACTGTTTTTTTTACAATGA
1 CGATTTTTTTACTGTTTTTTTTACAATGA
1768986 GAGTTAGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 14 0.50
29 14 0.50
ACGTcount: A:0.21, C:0.11, G:0.11, T:0.58
Consensus pattern (29 bp):
CGATTTTTTTACTGTTTTTTTTACAATGA
Found at i:1772900 original size:11 final size:12
Alignment explanation
Indices: 1772880--1772913 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
1772870 GAAGGGTAGA
1772880 GAGAAAAAAATC
1 GAGAAAAAAATC
*
1772892 GAGAAAAAAATT
1 GAGAAAAAAATC
1772904 GAGAAAAAAA
1 GAGAAAAAAA
1772914 AAAAGAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.71, C:0.03, G:0.18, T:0.09
Consensus pattern (12 bp):
GAGAAAAAAATC
Found at i:1773209 original size:34 final size:34
Alignment explanation
Indices: 1773163--1773239 Score: 118
Period size: 34 Copynumber: 2.2 Consensus size: 34
1773153 CCATTCAGTG
*
1773163 AATTATTTTTTCACTATCACTACTATCAAGTTAAA
1 AATT-TTTTTTCACTATCACTACAATCAAGTTAAA
* *
1773198 AGTTTTTTTTCACTATTACTACAATCAAGTTAAA
1 AATTTTTTTTCACTATCACTACAATCAAGTTAAA
1773232 AATTTTTT
1 AATTTTTT
1773240 AATAGGTGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
34 35 0.92
35 3 0.08
ACGTcount: A:0.35, C:0.14, G:0.04, T:0.47
Consensus pattern (34 bp):
AATTTTTTTTCACTATCACTACAATCAAGTTAAA
Found at i:1773254 original size:20 final size:21
Alignment explanation
Indices: 1773229--1773278 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
1773219 CAATCAAGTT
1773229 AAAAATTTTTTAATAGG-TGA
1 AAAAATTTTTTAATAGGTTGA
**
1773249 AAAAATAATTTAATAGGTTGA
1 AAAAATTTTTTAATAGGTTGA
*
1773270 AAATATTTT
1 AAAAATTTT
1773279 AACTGGTATT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (21 bp):
AAAAATTTTTTAATAGGTTGA
Found at i:1790396 original size:40 final size:40
Alignment explanation
Indices: 1790341--1790417 Score: 136
Period size: 40 Copynumber: 1.9 Consensus size: 40
1790331 GACTACAGGG
*
1790341 TTTAACTAAGAGAAGAAACCTGGTTAAGTGGTGAACACAA
1 TTTAACTAAGAGAAGAAACCTGGTTAAGTGGGGAACACAA
*
1790381 TTTAACTAAGAGAAGAAATCTGGTTAAGTGGGGAACA
1 TTTAACTAAGAGAAGAAACCTGGTTAAGTGGGGAACA
1790418 TGTTGCCAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.42, C:0.10, G:0.25, T:0.23
Consensus pattern (40 bp):
TTTAACTAAGAGAAGAAACCTGGTTAAGTGGGGAACACAA
Found at i:1790959 original size:21 final size:20
Alignment explanation
Indices: 1790925--1790965 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
1790915 TTTGGGCCTA
**
1790925 TTTTCCTTTTTCCCTTCTGTT
1 TTTTCCTTCATCCCTT-TGTT
1790946 TTTTCCTTCATCCCTTTGTT
1 TTTTCCTTCATCCCTTTGTT
1790966 AAAGACATGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.02, C:0.29, G:0.05, T:0.63
Consensus pattern (20 bp):
TTTTCCTTCATCCCTTTGTT
Found at i:1793232 original size:19 final size:21
Alignment explanation
Indices: 1793193--1793232 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1793183 TTGATGAAAC
1793193 AAGAAGTTTAAAAACTCAATT
1 AAGAAGTTTAAAAACTCAATT
*
1793214 AAGAA-TTTAGAAA-TCAATT
1 AAGAAGTTTAAAAACTCAATT
1793233 TGAATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 7 0.39
21 5 0.28
ACGTcount: A:0.53, C:0.07, G:0.10, T:0.30
Consensus pattern (21 bp):
AAGAAGTTTAAAAACTCAATT
Found at i:1797440 original size:61 final size:60
Alignment explanation
Indices: 1797369--1797488 Score: 145
Period size: 60 Copynumber: 2.0 Consensus size: 60
1797359 ATGAACTTAG
* * *
1797369 CTTTAAGGTTCAAATTGGTA-TCTAATATTTTTTTTTGGTTCAATTA-AGTACTTAAACTTGC
1 CTTTAAGGTTCAAATTGGTACT-TAA-AATTTATTTTGGTCCAATTAGA-TACTTAAACTTGC
* * *
1797430 CTTTAGGGTTCAATTTGGTACTTAAAATTTATTTTGGTCCAATTAGATACTTGAACTTG
1 CTTTAAGGTTCAAATTGGTACTTAAAATTTATTTTGGTCCAATTAGATACTTAAACTTG
1797489 GCTTCTTAGT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
60 28 0.55
61 22 0.43
62 1 0.02
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.46
Consensus pattern (60 bp):
CTTTAAGGTTCAAATTGGTACTTAAAATTTATTTTGGTCCAATTAGATACTTAAACTTGC
Found at i:1797487 original size:60 final size:60
Alignment explanation
Indices: 1797355--1797488 Score: 148
Period size: 61 Copynumber: 2.2 Consensus size: 60
1797345 ATATATTTTG
* * * *
1797355 GTACATGAACTTAGCTTTAAGGTTCAAATTGGTATCTAATATTTTTTTTTGGTTCAATTAA
1 GTACTTGAACTT-GCTTTAAGGTTCAAATTGGTATCTAATAATTTATTTTGGTCCAATTAA
* * *
1797416 GTACTTAAACTTGCCTTTAGGGTTCAATTTGGTA-CTTAA-AATTTATTTTGGTCCAATT-A
1 GTACTTGAACTTG-CTTTAAGGTTCAAATTGGTATC-TAATAATTTATTTTGGTCCAATTAA
1797475 GATACTTGAACTTG
1 G-TACTTGAACTTG
1797489 GCTTCTTAGT
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
59 2 0.03
60 29 0.47
61 31 0.50
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (60 bp):
GTACTTGAACTTGCTTTAAGGTTCAAATTGGTATCTAATAATTTATTTTGGTCCAATTAA
Found at i:1806112 original size:15 final size:15
Alignment explanation
Indices: 1806092--1806135 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
1806082 ACCAAATTAC
1806092 AAAAAAATTAAATCT
1 AAAAAAATTAAATCT
1806107 AAAAAAA-TAGAATCT
1 AAAAAAATTA-AATCT
1806122 AAAAAAATTGAAAT
1 AAAAAAATT-AAAT
1806136 AAAAGCAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 2 0.08
15 19 0.73
16 4 0.15
17 1 0.04
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (15 bp):
AAAAAAATTAAATCT
Found at i:1807354 original size:16 final size:15
Alignment explanation
Indices: 1807315--1807357 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
1807305 AAAGTGCAGG
1807315 GATTAAAATATTAAC
1 GATTAAAATATTAAC
** *
1807330 TTTTCAAATATATAAC
1 GATTAAAATAT-TAAC
1807346 GATTAAAATATT
1 GATTAAAATATT
1807358 CCTTTTAATA
Statistics
Matches: 21, Mismatches: 6, Indels: 2
0.72 0.21 0.07
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.40
Consensus pattern (15 bp):
GATTAAAATATTAAC
Found at i:1809084 original size:27 final size:27
Alignment explanation
Indices: 1809038--1809328 Score: 338
Period size: 27 Copynumber: 10.8 Consensus size: 27
1809028 GACCCCAAAC
1809038 TGTTATAAAATAACTGTTATG-CCCTCA
1 TGTTATAAAATAACTGTTATGCCCCT-A
** *
1809065 TGTGGTAAAATAACTATTATGCCCCTA
1 TGTTATAAAATAACTGTTATGCCCCTA
*
1809092 TGTTATAAAATAACGGTTATGCCCCTA
1 TGTTATAAAATAACTGTTATGCCCCTA
* *
1809119 TGTTATAAAATTACAGTTATGCCCCTA
1 TGTTATAAAATAACTGTTATGCCCCTA
*
1809146 TGTTATAAAATAACTGTTATGCCCTTA
1 TGTTATAAAATAACTGTTATGCCCCTA
*
1809173 TGTTATAAAATGACTGTTATG-CCCTCA
1 TGTTATAAAATAACTGTTATGCCCCT-A
* ** ** *
1809200 CGTGGTAAAATGGCTATTATGCCCCTA
1 TGTTATAAAATAACTGTTATGCCCCTA
* * *
1809227 TGTTATAAAATGACGGCTATGCCCCTA
1 TGTTATAAAATAACTGTTATGCCCCTA
* *
1809254 TGTTATAAAATGACTGTTATGCCCTTA
1 TGTTATAAAATAACTGTTATGCCCCTA
1809281 TGTTATAAAATAACTGTTATG-CCCTCA
1 TGTTATAAAATAACTGTTATGCCCCT-A
* *
1809308 TGTGATAAAATGACTG-TATGC
1 TGTTATAAAATAACTGTTATGC
1809329 TTAATGCTAT
Statistics
Matches: 226, Mismatches: 33, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
26 10 0.04
27 208 0.92
28 8 0.04
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (27 bp):
TGTTATAAAATAACTGTTATGCCCCTA
Found at i:1813420 original size:39 final size:39
Alignment explanation
Indices: 1813366--1813514 Score: 201
Period size: 39 Copynumber: 3.8 Consensus size: 39
1813356 TAAATATATT
*
1813366 TATTTTTTAACTTTTTTTAATTTTAAAATATTTTTAAAA
1 TATTTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAA
**
1813405 TATTTTTTTTA-TTTTTTAATTTTAAAATATTTTTAAAA
1 TATTTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAA
* **
1813443 TACTTTTTAAATTTTTTTAATTTTAAAGCATTTTTAAAA
1 TATTTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAA
*
1813482 TATTTTTAAAATATTTTTTTAATTTTTAAAATA
1 TATTTTT-TAA-ATTTTTTTAA-TTTTAAAATA
1813515 AAATTTTGGT
Statistics
Matches: 94, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
38 35 0.37
39 39 0.41
40 2 0.02
41 10 0.11
42 8 0.09
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (39 bp):
TATTTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAA
Found at i:1813451 original size:12 final size:11
Alignment explanation
Indices: 1813386--1813499 Score: 81
Period size: 11 Copynumber: 11.4 Consensus size: 11
1813376 CTTTTTTTAA
1813386 TTTTAAAATAT
1 TTTTAAAATAT
1813397 TTTTAAAATAT
1 TTTTAAAATAT
**
1813408 TTTT--TTTAT
1 TTTTAAAATAT
*
1813417 TTTT----TAA
1 TTTTAAAATAT
1813424 TTTTAAAATAT
1 TTTTAAAATAT
1813435 TTTTAAAATACT
1 TTTTAAAATA-T
1813447 TTTT-AAAT-T
1 TTTTAAAATAT
*
1813456 TTTT----TAA
1 TTTTAAAATAT
**
1813463 TTTTAAAGCAT
1 TTTTAAAATAT
1813474 TTTTAAAATAT
1 TTTTAAAATAT
1813485 TTTTAAAATAT
1 TTTTAAAATAT
1813496 TTTT
1 TTTT
1813500 TTAATTTTTA
Statistics
Matches: 84, Mismatches: 9, Indels: 20
0.74 0.08 0.18
Matches are distributed among these distances:
6 1 0.01
7 10 0.12
9 12 0.14
11 56 0.67
12 5 0.06
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.61
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:1813521 original size:21 final size:20
Alignment explanation
Indices: 1813483--1813521 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1813473 TTTTTAAAAT
**
1813483 ATTTTTAAAATATTTTTTTA
1 ATTTTTAAAATAAATTTTTA
*
1813503 ATTTTTAAAATAAAATTTT
1 ATTTTTAAAATAAATTTTT
1813522 GGTATTTATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
ATTTTTAAAATAAATTTTTA
Found at i:1820274 original size:111 final size:111
Alignment explanation
Indices: 1820138--1820358 Score: 361
Period size: 111 Copynumber: 2.0 Consensus size: 111
1820128 TAAATAATCG
* * *
1820138 AAAATTTTCTACAATCAAAGCGCATAAACCAAAAACTCACTTTCAGGAATTCGATACGTCGTGTC
1 AAAATTTTCTACAACCAAAACGCATAAACCAAAAACTCACTTTCAGGAATTCGATACGCCGTGTC
* * *
1820203 CTATTGTATTGGATGTGATGTGTCGTTTTCTTGAAATGAAGATTTT
66 CTAATGTATTGGATGTGACGTGTCGTTTTCTCGAAATGAAGATTTT
* * *
1820249 AAAATTTTCTACAACCAAAATGCATAAACCAAAAACTCACTTTCGGGAATTCGATATGCCGTGTC
1 AAAATTTTCTACAACCAAAACGCATAAACCAAAAACTCACTTTCAGGAATTCGATACGCCGTGTC
1820314 CTAATGTATTGGATGTGACGTGTCGTTTTCTCGAAATGAAGATTT
66 CTAATGTATTGGATGTGACGTGTCGTTTTCTCGAAATGAAGATTT
1820359 AAATAATAAG
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
111 101 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Consensus pattern (111 bp):
AAAATTTTCTACAACCAAAACGCATAAACCAAAAACTCACTTTCAGGAATTCGATACGCCGTGTC
CTAATGTATTGGATGTGACGTGTCGTTTTCTCGAAATGAAGATTTT
Found at i:1832310 original size:44 final size:44
Alignment explanation
Indices: 1832124--1832295 Score: 236
Period size: 44 Copynumber: 3.9 Consensus size: 44
1832114 AATCACAAAA
* * * *
1832124 CCTAGCTCCTTGACCAGCAGTGGAATAGGTTAAAGATCGTAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGT
* * *
1832168 CCTATCTCCCTGACCAGCAGAGGAATAGGTAGAAGATTGCAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGT
* * *
1832212 CCTAACTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGTATGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGT
* *
1832256 CCCATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATTGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGT
1832296 GGATCCTGTC
Statistics
Matches: 112, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 112 1.00
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.24
Consensus pattern (44 bp):
CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGT
Found at i:1832322 original size:44 final size:44
Alignment explanation
Indices: 1832136--1832323 Score: 209
Period size: 44 Copynumber: 4.3 Consensus size: 44
1832126 TAGCTCCTTG
* * *
1832136 ACCAGCAGTGGAATAGGTTAAAGATCGTAAGTCCTATCTCCCTG
1 ACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTA
* * * * *
1832180 ACCAGCAGAGGAATAGGTAGAAGATTGCAAGTCCTAACTCCCTG
1 ACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTA
* * *
1832224 ACCAGCAGTGGAATAGGTGGAAGATTGTATGTCCCATCTCCCTGA
1 ACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCT-A
* *
1832269 A-CAGCAGTGGAATAGGTTGAAGATTGT-GGATCCTGTCTCCCTA
1 ACCAGCAGTGGAATAGGTTGAAGATTGTAAG-TCCTATCTCCCTA
* *
1832312 AGCAGTAGTGGA
1 ACCAGCAGTGGA
1832324 GCAAATCGAA
Statistics
Matches: 123, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
43 3 0.02
44 119 0.97
45 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (44 bp):
ACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTA
Found at i:1832910 original size:22 final size:22
Alignment explanation
Indices: 1832868--1832911 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
1832858 TACAGAAATA
* *
1832868 AAATAATAAAAATGAACAATTG
1 AAATAATAAAAAGGAAAAATTG
1832890 AAATAA-AAAAAGGATAAAATTG
1 AAATAATAAAAAGGA-AAAATTG
1832912 GAATTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.66, C:0.02, G:0.11, T:0.20
Consensus pattern (22 bp):
AAATAATAAAAAGGAAAAATTG
Found at i:1840128 original size:77 final size:77
Alignment explanation
Indices: 1840001--1840153 Score: 270
Period size: 77 Copynumber: 2.0 Consensus size: 77
1839991 TAATAGAAGT
*
1840001 AAATCACTATCCTATACACATTTCAATCACATCATCTTTACGACTTATCATAATTAATAGATTAA
1 AAATCACTATCCTATACACATTTCAATCACATCATCTTTACGACTTATCATAATTAATAAATTAA
1840066 ACATTGAAATTC
66 ACATTGAAATTC
* * *
1840078 AAATCATTATCGTATACACATTTCAATCATATCATCTTTACGACTTATCATAATTAATAAATTAA
1 AAATCACTATCCTATACACATTTCAATCACATCATCTTTACGACTTATCATAATTAATAAATTAA
1840143 ACATTGAAATT
66 ACATTGAAATT
1840154 AAACTGTGAA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 72 1.00
ACGTcount: A:0.41, C:0.18, G:0.04, T:0.37
Consensus pattern (77 bp):
AAATCACTATCCTATACACATTTCAATCACATCATCTTTACGACTTATCATAATTAATAAATTAA
ACATTGAAATTC
Found at i:1840637 original size:16 final size:17
Alignment explanation
Indices: 1840600--1840638 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
1840590 AGTAAAAATT
1840600 TAATTTTATTATTTTAA
1 TAATTTTATTATTTTAA
*
1840617 T-ATTTTA-TATTTTTA
1 TAATTTTATTATTTTAA
1840632 TAATTTT
1 TAATTTT
1840639 TACTTATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 8 0.40
16 11 0.55
17 1 0.05
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TAATTTTATTATTTTAA
Found at i:1840645 original size:21 final size:22
Alignment explanation
Indices: 1840621--1840663 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
1840611 TTTTAATATT
*
1840621 TTATATT-TTTATAATTTTTAC
1 TTATATTATTTAAAATTTTTAC
1840642 TTATATTAATTTAAAATTTTTA
1 TTATATT-ATTTAAAATTTTTA
1840664 TTAAATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
23 12 0.63
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
TTATATTATTTAAAATTTTTAC
Found at i:1844224 original size:18 final size:18
Alignment explanation
Indices: 1844203--1844289 Score: 120
Period size: 18 Copynumber: 4.8 Consensus size: 18
1844193 CGTTTACGAT
*
1844203 ACTATTCATGTATACGGC
1 ACTATTCACGTATACGGC
*
1844221 ACTATTCACGTATACGGT
1 ACTATTCACGTATACGGC
* *
1844239 ACTATTTATGTATACGGC
1 ACTATTCACGTATACGGC
*
1844257 ACTATTCACGTATACGGT
1 ACTATTCACGTATACGGC
*
1844275 ACTGTTCACGTATAC
1 ACTATTCACGTATAC
1844290 AGTAGTTGGG
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 60 1.00
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (18 bp):
ACTATTCACGTATACGGC
Found at i:1844250 original size:36 final size:36
Alignment explanation
Indices: 1844197--1844289 Score: 150
Period size: 36 Copynumber: 2.6 Consensus size: 36
1844187 TACGACCGTT
*
1844197 TACGATACTATTCATGTATACGGCACTATTCACGTA
1 TACGGTACTATTCATGTATACGGCACTATTCACGTA
*
1844233 TACGGTACTATTTATGTATACGGCACTATTCACGTA
1 TACGGTACTATTCATGTATACGGCACTATTCACGTA
* *
1844269 TACGGTACTGTTCACGTATAC
1 TACGGTACTATTCATGTATAC
1844290 AGTAGTTGGG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 52 1.00
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (36 bp):
TACGGTACTATTCATGTATACGGCACTATTCACGTA
Found at i:1860237 original size:76 final size:76
Alignment explanation
Indices: 1859999--1860421 Score: 390
Period size: 76 Copynumber: 5.6 Consensus size: 76
1859989 TACGGTCCAC
* ** * * * * * * * *
1859999 TGATTTAATATCGTGACTTTCAATTTTTTAACAATTCGCTTGATTTAATCTCGTGACTGTCATTT
1 TGATTTAAGATCGCAACCTTCAGTTTTCTAACAGTTTGCTTGATTTAATCTTGCGACTATCATTT
*
1860064 TTATAATCTGT
66 TTATGATCTGT
* * * * *
1860075 TGATTTAAGATCG-AGACCATCGGTTTTCTAACAGTTTGC-TGATTTAATATTGCAACTGTCATT
1 TGATTTAAGATCGCA-ACCTTCAGTTTTCTAACAGTTTGCTTGATTTAATCTTGCGACTATCATT
* *
1860138 TTTACGATCCGCT
65 TTTATGATCTG-T
* *
1860151 T-ATCTAAGATCGCAACCTTCAGTTTTCTAACAGTTTGCTTGATTTAATCTTGTGACTATCATTT
1 TGATTTAAGATCGCAACCTTCAGTTTTCTAACAGTTTGCTTGATTTAATCTTGCGACTATCATTT
* *
1860215 TTATGGTTTGT
66 TTATGATCTGT
** * * *
1860226 TGATTTAAGATCGTGACCTTCGGTTTTCTAACAATTTGCTTGATTTAATCTTGCGACTATCGTTT
1 TGATTTAAGATCGCAACCTTCAGTTTTCTAACAGTTTGCTTGATTTAATCTTGCGACTATCATTT
* * *
1860291 TTACGATCCGC
66 TTATGATCTGT
* * * * * * *
1860302 TAATTTAATATCGCAACCTTCAATTTTCTAATAGTTTGCTTGATTTAATCTCGCAACTTTCATTT
1 TGATTTAAGATCGCAACCTTCAGTTTTCTAACAGTTTGCTTGATTTAATCTTGCGACTATCATTT
*
1860367 TTATG-GCTTGT
66 TTATGATC-TGT
* * *
1860378 TGATTTAATAGCACAACCTTC-GATTTTCTAACAGTTTGC-TGATT
1 TGATTTAAGATCGCAACCTTCAG-TTTTCTAACAGTTTGCTTGATT
1860422 CACGATCACG
Statistics
Matches: 280, Mismatches: 60, Indels: 15
0.79 0.17 0.04
Matches are distributed among these distances:
75 68 0.24
76 212 0.76
ACGTcount: A:0.24, C:0.17, G:0.14, T:0.44
Consensus pattern (76 bp):
TGATTTAAGATCGCAACCTTCAGTTTTCTAACAGTTTGCTTGATTTAATCTTGCGACTATCATTT
TTATGATCTGT
Found at i:1860249 original size:151 final size:151
Alignment explanation
Indices: 1860017--1860421 Score: 533
Period size: 152 Copynumber: 2.7 Consensus size: 151
1860007 TATCGTGACT
* * * * ** *
1860017 TTCAATTTTTTAACAATTCGCTTGATTTAATCTCGTGACTGTCATTTTTATAATCTGTTGATTTA
1 TTCAATTTTCTAACAGTTTGCTTGATTTAATCTCGTGACTATCATTTTTATGGTTTGTTGATTTA
* *
1860082 AGATCGAGACCATCGGTTTTCTAACAGTTTGCTGATTTAATATTGCAACTGTCATTTTTACGATC
66 AGATCGAGACCTTCGGTTTTCTAACAGTTTGCTGATTTAATATTGCAACTATCATTTTTACGATC
*
1860147 CGCTTATCTAAGATCGCAACC
131 CGCTAATCTAAGATCGCAACC
* *
1860168 TTCAGTTTTCTAACAGTTTGCTTGATTTAATCTTGTGACTATCATTTTTATGGTTTGTTGATTTA
1 TTCAATTTTCTAACAGTTTGCTTGATTTAATCTCGTGACTATCATTTTTATGGTTTGTTGATTTA
* * * * *
1860233 AGATCGTGACCTTCGGTTTTCTAACAATTTGCTTGATTTAATCTTGCGACTATCGTTTTTACGAT
66 AGATCGAGACCTTCGGTTTTCTAACAGTTTGC-TGATTTAATATTGCAACTATCATTTTTACGAT
* *
1860298 CCGCTAATTTAATATCGCAACC
130 CCGCTAATCTAAGATCGCAACC
* ** * *
1860320 TTCAATTTTCTAATAGTTTGCTTGATTTAATCTCGCAACTTTCATTTTTATGGCTTGTTGATTTA
1 TTCAATTTTCTAACAGTTTGCTTGATTTAATCTCGTGACTATCATTTTTATGGTTTGTTGATTTA
* * * *
1860385 ATAGC-ACAACCTTCGATTTTCTAACAGTTTGCTGATT
66 AGATCGA-GACCTTCGGTTTTCTAACAGTTTGCTGATT
1860422 CACGATCACG
Statistics
Matches: 220, Mismatches: 32, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
151 90 0.41
152 130 0.59
ACGTcount: A:0.24, C:0.18, G:0.14, T:0.44
Consensus pattern (151 bp):
TTCAATTTTCTAACAGTTTGCTTGATTTAATCTCGTGACTATCATTTTTATGGTTTGTTGATTTA
AGATCGAGACCTTCGGTTTTCTAACAGTTTGCTGATTTAATATTGCAACTATCATTTTTACGATC
CGCTAATCTAAGATCGCAACC
Found at i:1860351 original size:152 final size:151
Alignment explanation
Indices: 1859951--1860444 Score: 558
Period size: 151 Copynumber: 3.3 Consensus size: 151
1859941 TCATTTAAGA
* * * * * * * * **
1859951 TAACAGTTTACTTGTTTTAATATCGCGATTATCATCTTTACGGTCCACTGATTTAATATCGTGAC
1 TAACAGTTTGC-TGATTTAATATTGCGACTATCATTTTTACGATCCGCTAATTTAATATCGCAAC
* * * * * ** *
1860016 TTTCAATTTTTTAACAATTCGCTTGATTTAATCTCGTGACTGTCATTTTTATAATCTGTTGATTT
65 CTTCAATTTTCTAACAGTTTGCTTGATTTAATCTCGTGACTATCATTTTTATGGTTTGTTGATTT
*
1860081 AAGATCGAGACCATCGGTTTTC
130 AAGATCGAGACCTTCGGTTTTC
* * * * *
1860103 TAACAGTTTGCTGATTTAATATTGCAACTGTCATTTTTACGATCCGCTTATCTAAGATCGCAACC
1 TAACAGTTTGCTGATTTAATATTGCGACTATCATTTTTACGATCCGCTAATTTAATATCGCAACC
* *
1860168 TTCAGTTTTCTAACAGTTTGCTTGATTTAATCTTGTGACTATCATTTTTATGGTTTGTTGATTTA
66 TTCAATTTTCTAACAGTTTGCTTGATTTAATCTCGTGACTATCATTTTTATGGTTTGTTGATTTA
*
1860233 AGATCGTGACCTTCGGTTTTC
131 AGATCGAGACCTTCGGTTTTC
* * *
1860254 TAACAATTTGCTTGATTTAATCTTGCGACTATCGTTTTTACGATCCGCTAATTTAATATCGCAAC
1 TAACAGTTTGC-TGATTTAATATTGCGACTATCATTTTTACGATCCGCTAATTTAATATCGCAAC
* ** * *
1860319 CTTCAATTTTCTAATAGTTTGCTTGATTTAATCTCGCAACTTTCATTTTTATGGCTTGTTGATTT
65 CTTCAATTTTCTAACAGTTTGCTTGATTTAATCTCGTGACTATCATTTTTATGGTTTGTTGATTT
* * * *
1860384 AATAGC-ACAACCTTCGATTTTC
130 AAGATCGA-GACCTTCGGTTTTC
* ** **
1860406 TAACAGTTTGCTGATTCACGATCACGACTATCATTTTTA
1 TAACAGTTTGCTGATTTAATATTGCGACTATCATTTTTA
1860445 AAGCTCGCTA
Statistics
Matches: 286, Mismatches: 54, Indels: 5
0.83 0.16 0.01
Matches are distributed among these distances:
151 146 0.51
152 140 0.49
ACGTcount: A:0.24, C:0.18, G:0.14, T:0.44
Consensus pattern (151 bp):
TAACAGTTTGCTGATTTAATATTGCGACTATCATTTTTACGATCCGCTAATTTAATATCGCAACC
TTCAATTTTCTAACAGTTTGCTTGATTTAATCTCGTGACTATCATTTTTATGGTTTGTTGATTTA
AGATCGAGACCTTCGGTTTTC
Found at i:1863106 original size:13 final size:13
Alignment explanation
Indices: 1863072--1863113 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
1863062 AAAGTCAAAT
*
1863072 TAAATAA-AAAAT
1 TAAATAATAAAAA
1863084 TAAAATTAATAAAAA
1 T-AAA-TAATAAAAA
1863099 TAAATAATAAAAA
1 TAAATAATAAAAA
1863112 TA
1 TA
1863114 TATTGATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 1 0.04
13 14 0.54
14 6 0.23
15 5 0.19
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
TAAATAATAAAAA
Found at i:1867016 original size:19 final size:20
Alignment explanation
Indices: 1866992--1867030 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 20
1866982 AAATTGGTTA
1866992 GTGTAATTTA-ATTTTTTTC
1 GTGTAATTTAGATTTTTTTC
1867011 GTGTAATTTAGTATTTTTTT
1 GTGTAATTTAG-ATTTTTTT
1867031 ATAACTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
21 8 0.44
ACGTcount: A:0.21, C:0.03, G:0.13, T:0.64
Consensus pattern (20 bp):
GTGTAATTTAGATTTTTTTC
Found at i:1867969 original size:12 final size:12
Alignment explanation
Indices: 1867950--1867980 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
1867940 TATGTATCCA
1867950 TCCGAGTTCGAG
1 TCCGAGTTCGAG
*
1867962 TTCGAGTTCGAG
1 TCCGAGTTCGAG
1867974 TCCGAGT
1 TCCGAGT
1867981 CTAAGTTGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.16, C:0.23, G:0.32, T:0.29
Consensus pattern (12 bp):
TCCGAGTTCGAG
Found at i:1868852 original size:15 final size:15
Alignment explanation
Indices: 1868797--1868853 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
1868787 TTTATACTAC
*
1868797 AAAATATTTAGTATT
1 AAAATATTTATTATT
* *
1868812 AATATATTTATAATTGT
1 AAAATATTTATTA-T-T
1868829 AATAAATATTTATTATT
1 -A-AAATATTTATTATT
1868846 AAAATATT
1 AAAATATT
1868854 AATATTGAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 17 0.52
16 2 0.06
17 2 0.06
18 2 0.06
19 10 0.30
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:1868904 original size:13 final size:13
Alignment explanation
Indices: 1868885--1868923 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
1868875 TATGTGAATA
1868885 ATATTATTTAAAAT
1 ATATTA-TTAAAAT
1868899 -TATTATT-AAAT
1 ATATTATTAAAAT
1868910 ATATTATTAAAAT
1 ATATTATTAAAAT
1868923 A
1 A
1868924 AAATTGAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
11 4 0.17
12 9 0.39
13 10 0.43
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
ATATTATTAAAAT
Found at i:1868914 original size:12 final size:11
Alignment explanation
Indices: 1868884--1868937 Score: 54
Period size: 12 Copynumber: 4.6 Consensus size: 11
1868874 ATATGTGAAT
1868884 AATATTATTTAA
1 AATATTA-TTAA
1868896 AATTATTATTAA
1 AA-TATTATTAA
1868908 ATATATTATTAA
1 A-ATATTATTAA
** *
1868920 AATAAAATTGA
1 AATATTATTAA
1868931 AATATTA
1 AATATTA
1868938 AATAATTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
11 12 0.34
12 17 0.49
13 6 0.17
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (11 bp):
AATATTATTAA
Found at i:1870495 original size:48 final size:48
Alignment explanation
Indices: 1870436--1870528 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
1870426 TCAAGAGGGA
*
1870436 ATAAATAGTGATAAGACTGTAGACAGTGGAAGACCAAGCTTAGCAATG
1 ATAAATAGTGATAAGACTGTAGACACTGGAAGACCAAGCTTAGCAATG
* * * * *
1870484 ATAAATAGTGATAAGAGTGTCGGCACTGGAAGATCAAGTTTAGCA
1 ATAAATAGTGATAAGACTGTAGACACTGGAAGACCAAGCTTAGCA
1870529 TTGCATAGCA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.23
Consensus pattern (48 bp):
ATAAATAGTGATAAGACTGTAGACACTGGAAGACCAAGCTTAGCAATG
Found at i:1873706 original size:28 final size:30
Alignment explanation
Indices: 1873638--1873716 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 30
1873628 TATAGATACG
*
1873638 TACATATATGTATGA-ATAAATTATAAAAAA
1 TACATATATGTAT-ATATATATTATAAAAAA
* * *
1873668 TATACACATGTATATATATATTA-AAAAAA
1 TACATATATGTATATATATATTATAAAAAA
*
1873697 -ACATATATGTGTATATATAT
1 TACATATATGTATATATATAT
1873717 GACTACGAGA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
28 16 0.40
29 7 0.17
30 17 0.43
ACGTcount: A:0.52, C:0.05, G:0.06, T:0.37
Consensus pattern (30 bp):
TACATATATGTATATATATATTATAAAAAA
Found at i:1878910 original size:17 final size:18
Alignment explanation
Indices: 1878890--1878927 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
1878880 ATTTTTATAA
1878890 TTATTAAGTA-TTTTAAG
1 TTATTAAGTAGTTTTAAG
* *
1878907 TTATTTAGTAGTTTTATG
1 TTATTAAGTAGTTTTAAG
1878925 TTA
1 TTA
1878928 ACTAGAAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (18 bp):
TTATTAAGTAGTTTTAAG
Found at i:1892343 original size:16 final size:16
Alignment explanation
Indices: 1892261--1892343 Score: 62
Period size: 16 Copynumber: 5.2 Consensus size: 16
1892251 CTTAAACACT
1892261 AATGACCTAAACTCAA
1 AATGACCTAAACTCAA
* * *
1892277 AAT-AACTCAACCTTAA
1 AATGACCT-AAACTCAA
* *
1892293 AATGACATGAACTCAA
1 AATGACCTAAACTCAA
* *
1892309 ACTAACCTAAACT-AGA
1 AATGACCTAAACTCA-A
*
1892325 AATGATCTAAACTCAA
1 AATGACCTAAACTCAA
1892341 AAT
1 AAT
1892344 TCATATAAAT
Statistics
Matches: 48, Mismatches: 15, Indels: 8
0.68 0.21 0.11
Matches are distributed among these distances:
15 4 0.08
16 41 0.85
17 3 0.06
ACGTcount: A:0.51, C:0.22, G:0.06, T:0.22
Consensus pattern (16 bp):
AATGACCTAAACTCAA
Found at i:1904364 original size:25 final size:25
Alignment explanation
Indices: 1904336--1904440 Score: 144
Period size: 25 Copynumber: 4.3 Consensus size: 25
1904326 ACCTTAGCGC
*
1904336 GCTCTCTGATTATTAGCACGTTAAT
1 GCTCTCTGATTATTAGCACATTAAT
*
1904361 GCTCTCTGATTATTAGCACATTAGT
1 GCTCTCTGATTATTAGCACATTAAT
* *
1904386 GCTCTCCGATTATTAGCACATTTAT
1 GCTCTCTGATTATTAGCACATTAAT
*
1904411 GCTCTCTG--TA-TAGCACATTTAT
1 GCTCTCTGATTATTAGCACATTAAT
1904433 GCTCTCTG
1 GCTCTCTG
1904441 TATAACACTT
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
22 20 0.27
23 2 0.03
25 52 0.70
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACATTAAT
Found at i:1904427 original size:22 final size:24
Alignment explanation
Indices: 1904336--1904462 Score: 131
Period size: 25 Copynumber: 5.3 Consensus size: 24
1904326 ACCTTAGCGC
* *
1904336 GCTCTCTGATTATTAGCACGTTAAT
1 GCTCTCTGA-TATTAGCACATTTAT
1904361 GCTCTCTGATTATTAGCACA-TTAGT
1 GCTCTCTGA-TATTAGCACATTTA-T
*
1904386 GCTCTCCGATTATTAGCACATTTAT
1 GCTCTCTGA-TATTAGCACATTTAT
1904411 GCTCTCTG-TA-TAGCACATTTAT
1 GCTCTCTGATATTAGCACATTTAT
*
1904433 GCTCTCTG-TA-TAACAC-TTTAGT
1 GCTCTCTGATATTAGCACATTTA-T
1904455 GCTCTCTG
1 GCTCTCTG
1904463 CTTAATAGTG
Statistics
Matches: 94, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
21 4 0.04
22 36 0.38
23 2 0.02
24 2 0.02
25 47 0.50
26 3 0.03
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (24 bp):
GCTCTCTGATATTAGCACATTTAT
Found at i:1907129 original size:23 final size:23
Alignment explanation
Indices: 1907086--1907144 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
1907076 AAAAATAGTG
*
1907086 AAATTATATATTAATACATAATA
1 AAATTATATATTAATACATAAAA
* * **
1907109 AATTTATATTTTAATTTATAAAA
1 AAATTATATATTAATACATAAAA
1907132 AAATTATA-ATTAA
1 AAATTATATATTAA
1907145 ATACTGACCC
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
22 4 0.14
23 25 0.86
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (23 bp):
AAATTATATATTAATACATAAAA
Found at i:1908425 original size:16 final size:16
Alignment explanation
Indices: 1908404--1908436 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1908394 ATTTCGTCCC
1908404 TCTTTATTACCTCAAA
1 TCTTTATTACCTCAAA
1908420 TCTTTATTACCTCAAA
1 TCTTTATTACCTCAAA
1908436 T
1 T
1908437 TTTGCTAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.45
Consensus pattern (16 bp):
TCTTTATTACCTCAAA
Found at i:1916280 original size:13 final size:13
Alignment explanation
Indices: 1916262--1916287 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1916252 ATTTATTGTA
1916262 ATAAATAACAATC
1 ATAAATAACAATC
1916275 ATAAATAACAATC
1 ATAAATAACAATC
1916288 CAGTAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (13 bp):
ATAAATAACAATC
Found at i:1945466 original size:20 final size:21
Alignment explanation
Indices: 1945430--1945468 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1945420 TGTATTTTTT
1945430 TATTTATAATATAATTATTAA
1 TATTTATAATATAATTATTAA
*
1945451 TATTTAT-ATTTAATTATT
1 TATTTATAATATAATTATT
1945469 TTATATCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TATTTATAATATAATTATTAA
Found at i:1945474 original size:21 final size:22
Alignment explanation
Indices: 1945425--1945474 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
1945415 TGATTTGTAT
*
1945425 TTTTTTATTTATAATATAATTA
1 TTTTATATTTATAATATAATTA
* *
1945447 -TTAATATTTAT-ATTTAATTA
1 TTTTATATTTATAATATAATTA
1945467 TTTTATAT
1 TTTTATAT
1945475 CTAAAAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTTATATTTATAATATAATTA
Found at i:1946968 original size:21 final size:21
Alignment explanation
Indices: 1946942--1947001 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
1946932 AAATTAATAA
1946942 ATAAAAAATTTAAAAAATTAT
1 ATAAAAAATTTAAAAAATTAT
*
1946963 ATAAAATCATTT-AAAAATTAT
1 ATAAAA-AATTTAAAAAATTAT
*
1946984 -T-AATAATTATAAAAAATT
1 ATAAAAAATT-TAAAAAATT
1947002 TAATAAATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
18 3 0.09
19 3 0.09
20 8 0.24
21 15 0.45
22 4 0.12
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
ATAAAAAATTTAAAAAATTAT
Found at i:1946992 original size:31 final size:31
Alignment explanation
Indices: 1946952--1947032 Score: 89
Period size: 30 Copynumber: 2.6 Consensus size: 31
1946942 ATAAAAAATT
*
1946952 TAAAAAATTATATAAAATCATTTAA-AAATT-A
1 TAAATAATTATA-AAAAT-ATTTAATAAATTAA
*
1946983 TTAATAATTATAAAAA-ATTTAATAAATTAA
1 TAAATAATTATAAAAATATTTAATAAATTAA
1947013 TAAATAATT-TAAAAAATATT
1 TAAATAATTAT-AAAAATATT
1947033 ACGAATTATA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
28 6 0.14
29 6 0.14
30 18 0.42
31 13 0.30
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (31 bp):
TAAATAATTATAAAAATATTTAATAAATTAA
Found at i:1946995 original size:29 final size:30
Alignment explanation
Indices: 1946971--1947029 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 30
1946961 ATATAAAATC
*
1946971 ATTTAA-AAATT-ATTAATAATTATAAAAA
1 ATTTAATAAATTAATAAATAATTATAAAAA
1946999 ATTTAATAAATTAATAAATAATT-TAAAAA
1 ATTTAATAAATTAATAAATAATTATAAAAA
1947028 AT
1 AT
1947030 ATTACGAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 6 0.21
29 13 0.46
30 9 0.32
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (30 bp):
ATTTAATAAATTAATAAATAATTATAAAAA
Found at i:1946998 original size:19 final size:20
Alignment explanation
Indices: 1946974--1947022 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
1946964 TAAAATCATT
1946974 TAAAAATTATTAAT-AATT-A
1 TAAAAATT-TTAATAAATTAA
*
1946993 TAAAAAATTTAATAAATTAA
1 TAAAAATTTTAATAAATTAA
1947013 TAAATAATTT
1 TAAA-AATTT
1947023 AAAAAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 5 0.20
19 11 0.44
20 5 0.20
21 4 0.16
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAAAATTTTAATAAATTAA
Found at i:1947015 original size:20 final size:19
Alignment explanation
Indices: 1946983--1947029 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
1946973 TTAAAAATTA
1946983 TTAAT-AATTATAAAAAAT
1 TTAATAAATTATAAAAAAT
*
1947001 TTAATAAATTAATAAATAAT
1 TTAATAAATT-ATAAAAAAT
*
1947021 TTAAAAAAT
1 TTAATAAAT
1947030 ATTACGAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 5 0.20
19 4 0.16
20 16 0.64
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TTAATAAATTATAAAAAAT
Found at i:1947021 original size:30 final size:27
Alignment explanation
Indices: 1946945--1947043 Score: 83
Period size: 30 Copynumber: 3.4 Consensus size: 27
1946935 TTAATAAATA
*
1946945 AAAAATT-TAAAAAATTATATAAAATCATTT
1 AAAAATTATAAATAATT-TA-AAAA--ATTT
*
1946975 AAAAATTATTAATAATTATAAAAAATTT
1 AAAAATTATAAATAATT-TAAAAAATTT
1947003 AATAAATTAATAAATAATTTAAAAAATATT
1 AA-AAATT-ATAAATAATTTAAAAAAT-TT
**
1947033 ACGAATTATAA
1 AAAAATTATAA
1947044 GAAAGGTTCA
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
28 10 0.17
29 17 0.28
30 23 0.38
31 10 0.17
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.36
Consensus pattern (27 bp):
AAAAATTATAAATAATTTAAAAAATTT
Found at i:1947040 original size:48 final size:50
Alignment explanation
Indices: 1946942--1947043 Score: 145
Period size: 48 Copynumber: 2.1 Consensus size: 50
1946932 AAATTAATAA
* * *
1946942 ATAAAAAATTTAAAAAATTATATAAAATCATTTAAAAATTATTAATAATT
1 ATAAAAAATTTAAAAAATTATATAAAATAATTTAAAAAATATTAAGAATT
* *
1946992 ATAAAAAATTTAATAAATTA-AT-AAATAATTTAAAAAATATTACGAATT
1 ATAAAAAATTTAAAAAATTATATAAAATAATTTAAAAAATATTAAGAATT
1947040 ATAA
1 ATAA
1947044 GAAAGGTTCA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 26 0.55
49 2 0.04
50 19 0.40
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.36
Consensus pattern (50 bp):
ATAAAAAATTTAAAAAATTATATAAAATAATTTAAAAAATATTAAGAATT
Found at i:1954704 original size:21 final size:22
Alignment explanation
Indices: 1954667--1954707 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
1954657 TATCTAGATT
*
1954667 ATTAAAATTTTACGATTTAAAA
1 ATTAAAATTTTAAGATTTAAAA
1954689 ATTAAAA-TTTAAGATTTAA
1 ATTAAAATTTTAAGATTTAA
1954708 GGTTTAGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.41
Consensus pattern (22 bp):
ATTAAAATTTTAAGATTTAAAA
Found at i:1956323 original size:93 final size:90
Alignment explanation
Indices: 1956130--1956442 Score: 238
Period size: 92 Copynumber: 3.4 Consensus size: 90
1956120 TGGTGGTTCG
* * * * *
1956130 AAAATATTTTTAAGATTTTCTGTGATACTTATAAAAATTATTACTTATTATAATTCAATTTCAAG
1 AAAATATTTTTAAAATTTT-TGAGATAC-TATAAAAATTATTATTTATTATATTTCATTTTCAAG
* ***
1956195 GCACTTGAGTGTGAGTATGGTGGTGCA
64 GCACTTGAGTGTGAGTATAGTGCCCCA
* * *
1956222 AAAGTATTTTTAAAAATTTTT-AGGATAGCTATAAAAATTATTGTTTATTATATTTCATTTTCGG
1 AAAATATTTTT-AAAATTTTTGA-GATA-CTATAAAAATTATTATTTATTATATTTCATTTTC-A
*
1956286 GGGCACTTGAGAT-TGAGTATAGTGCCCCA
62 AGGCACTTGAG-TGTGAGTATAGTGCCCCA
** * * * *
1956315 AAAATATTTTTAATTTTTTTTGAGATAACTGTAAAAATTATTATTGACTATATTTTATTTTCCAA
1 AAAATATTTTTAA-AATTTTTGAGAT-ACTATAAAAATTATTATTTATTATATTTCATTTT-CAA
* * * ****
1956380 -ACACTTGAGCT-TAAGTATGGTGATGAA
63 GGCACTTGAG-TGTGAGTATAGTGCCCCA
*
1956407 AAAATATTTTTAAAATTTTTTGAGGTAACTATAAAA
1 AAAATATTTTTAAAA-TTTTTGAGAT-ACTATAAAA
1956443 GGGCCACAAT
Statistics
Matches: 176, Mismatches: 35, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
92 96 0.55
93 76 0.43
94 4 0.02
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.42
Consensus pattern (90 bp):
AAAATATTTTTAAAATTTTTGAGATACTATAAAAATTATTATTTATTATATTTCATTTTCAAGGC
ACTTGAGTGTGAGTATAGTGCCCCA
Found at i:1957274 original size:20 final size:20
Alignment explanation
Indices: 1957244--1957286 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
1957234 AACTGATGAA
1957244 TTTTATAATTTT-TAAATAT
1 TTTTATAATTTTGTAAATAT
*
1957263 TTTTATTAATTTTGTGAATAT
1 TTTTA-TAATTTTGTAAATAT
1957284 TTT
1 TTT
1957287 AAATATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.24
20 7 0.33
21 9 0.43
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (20 bp):
TTTTATAATTTTGTAAATAT
Found at i:1957287 original size:20 final size:18
Alignment explanation
Indices: 1957243--1957287 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 18
1957233 GAACTGATGA
1957243 ATTTTATAATTTTTAAAT
1 ATTTTATAATTTTTAAAT
*
1957261 ATTTTTATTAATTTTGTGAAT
1 A-TTTTA-TAATTTT-TAAAT
1957282 ATTTTA
1 ATTTTA
1957288 AATATTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 1 0.04
19 5 0.22
20 12 0.52
21 5 0.22
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (18 bp):
ATTTTATAATTTTTAAAT
Found at i:1958111 original size:18 final size:19
Alignment explanation
Indices: 1958077--1958114 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
1958067 TTTCAATTTC
*
1958077 AATTAAATAAATTATTAAA
1 AATTAAATAAATAATTAAA
1958096 AATTAAA-AAATAATTAAA
1 AATTAAATAAATAATTAAA
1958114 A
1 A
1958115 TATCATAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
AATTAAATAAATAATTAAA
Found at i:1969884 original size:141 final size:141
Alignment explanation
Indices: 1969630--1970049 Score: 718
Period size: 141 Copynumber: 3.0 Consensus size: 141
1969620 TAAATAAGAA
** * * *
1969630 TAAGTTTG-CATAGGTCCACGACCTCTATCAGTTTCGACTATTAGTAATGAAAGGGGCCT-TTCG
1 TAAGTTTGTC-TAGGTCCAAAACCCCTATCAGTTTCGACTATTAGTAATGAAAGGGACCTAGT-G
1969693 CCAAGTTTATCCTAACTCCAAGCTTGAGGACAAGCTTTTTCTCTGGCAAGGGAGTAATATTATGG
64 CCAAGTTTATCCTAACTCCAAGCTTGAGGACAAGCTTTTTCTCTGGCAAGGGAGTAATATTATGG
1969758 GCTGAATCTATAC
129 GCTGAATCTATAC
1969771 TAAGTTTGTCTAGGTCCAAAACCCCTATCAGTTTCGACTATTAGTAATGAAAGGGACCTAGTGCC
1 TAAGTTTGTCTAGGTCCAAAACCCCTATCAGTTTCGACTATTAGTAATGAAAGGGACCTAGTGCC
1969836 AAGTTTATCCTAACTCCAAGCTTGAGGACAAGCTTTTTCTCTGGCAAGGGAGTAATATTATGGGC
66 AAGTTTATCCTAACTCCAAGCTTGAGGACAAGCTTTTTCTCTGGCAAGGGAGTAATATTATGGGC
1969901 TGAATCTATAC
131 TGAATCTATAC
1969912 TAAGTTTGTCTAGGTCCAAAACCCCTATCAGTTTCGACTATTAGTAATGAAAGGGACCTAGTGCC
1 TAAGTTTGTCTAGGTCCAAAACCCCTATCAGTTTCGACTATTAGTAATGAAAGGGACCTAGTGCC
* * * * *
1969977 AAGTTTATCCTAACTCCAAGCTTGAGGACAAGCTCTTTCTCTAGCAAGGGACTGATCTTATGGGC
66 AAGTTTATCCTAACTCCAAGCTTGAGGACAAGCTTTTTCTCTGGCAAGGGAGTAATATTATGGGC
1970042 TGAATCTA
131 TGAATCTA
1970050 CGTTAGGAAA
Statistics
Matches: 267, Mismatches: 10, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
141 265 0.99
142 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (141 bp):
TAAGTTTGTCTAGGTCCAAAACCCCTATCAGTTTCGACTATTAGTAATGAAAGGGACCTAGTGCC
AAGTTTATCCTAACTCCAAGCTTGAGGACAAGCTTTTTCTCTGGCAAGGGAGTAATATTATGGGC
TGAATCTATAC
Found at i:1970514 original size:142 final size:141
Alignment explanation
Indices: 1970234--1971511 Score: 945
Period size: 142 Copynumber: 8.8 Consensus size: 141
1970224 AATACATGAG
* *
1970234 AATAAGTTTGTGTAGGTCCACAAACCCTATCGGTTTTGACTATTAGTAATGAAAGGGACCTTTCG
1 AATAAGTTTGTGTAGGTCCACAACCCCTATCGGTTTCGACTATTAGTAATGAAAGGGACCTTTCG
** * * *
1970299 CCAAGTTTATTGTAACTCTGAGCTTGAGGACAAGCTCTTTCTCTAGCAAGGGAGTAAAATTATGC
66 CCAAGTTTATCCTAACTCCGAGCTTGAGGACAAGCTCTTTCTCTAGCAAGGGAGTAATATTATGA
*
1970364 GCCAAATCTAT
131 GCCGAATCTAT
* * * * * * *
1970375 AATAAGTTTGTTTAAGTCTACGACCCCTATCGGTTTCAACTATTAGTAATGGAAGGGACCTTTTG
1 AATAAGTTTGTGTAGGTCCACAACCCCTATCGGTTTCGACTATTAGTAATGAAAGGGACCTTTCG
* *
1970440 CCAAAGTTTATCCTAGCTCCGAGCTTGAGGACAAGCTCTTTCTCTAGTAAGGGAGTAATATTATG
66 CC-AAGTTTATCCTAACTCCGAGCTTGAGGACAAGCTCTTTCTCTAGCAAGGGAGTAATATTATG
1970505 AGCCGAATCTAT
130 AGCCGAATCTAT
** * *
1970517 AATAAGTTTGTGTAGGTCCATGACCCCTATCGGTTTCGACTATTAGTAACGAAAGGGACCTTTCA
1 AATAAGTTTGTGTAGGTCCACAACCCCTATCGGTTTCGACTATTAGTAATGAAAGGGACCTTTCG
* * * * * * *
1970582 CCAAGTTCATCTTAACTCCAAGCTTGAGGACAATCTTTTTCTCTAGCAAGGTAGTAATATTATCA
66 CCAAGTTTATCCTAACTCCGAGCTTGAGGACAAGCTCTTTCTCTAGCAAGGGAGTAATATTATGA
1970647 GCCGAATCTATGTT
131 GCCGAATCTA---T
* * * * *** * * * * * ** ** **
1970661 AGGA-AAGGCTATTACTTTTGATTCTCTA-ATTAAGGCT-TAGGTTACTATTTTTTTTCTTTCCT
1 A--ATAA-G-T-TT-GTGTAG-GTC-C-ACA--ACCCCTATCGGTTTCGACTATTAGT-AAT-GA
* ** ***** * * * *** * * * *
1970723 CAGGTTGCAATTTTATTTCAGTTGAT-TTAATTCCTTTC-T-AGAATAGGCTTCCTAT-T-TACG
53 AAGG--G-ACCTTTCGCCAAGTTTATCCTAACTCCGAGCTTGAGGACAAGC-T-CTTTCTCTA-G
** ** *
1970783 CAATAAGACTAGTCCTTATTTAAGGGGTAAAGATGTATTC-AATGGTGCTAAT
112 C---AAG-GGAGT-AATA-TT-A----T---GA-G---CCGAA---T-CT-AT
* * * * ** * *
1970835 AAAAAAATTTGTGTAGGTCCATGAGCCCC-ATTAGTCTCGACGATTAGTAATGAAAGGGACCTTT
1 -AATAAGTTTGTGTAGGTCCA-CAACCCCTATCGGTTTCGACTATTAGTAATGAAAGGGACCTTT
1970899 CGCCAAGTTTATCCTAACTCCGAGCTTGAGGACAAGCTCTTTCTCTAGCAAGGGAGTAATATTAT
64 CGCCAAGTTTATCCTAACTCCGAGCTTGAGGACAAGCTCTTTCTCTAGCAAGGGAGTAATATTAT
* **
1970964 GGGTTGAATCTAT
129 GAGCCGAATCTAT
* * * * * * *
1970977 AATAAGCTTGTATGGGTCCACAACCCCTATCGGTTTCAACTATTAGCAATGGAAGGGACCTTTCA
1 AATAAGTTTGTGTAGGTCCACAACCCCTATCGGTTTCGACTATTAGTAATGAAAGGGACCTTTCG
* * * *
1971042 CCATGTTTATCCTTAACTCTGAGCCTGAGGAAAAGCTCTTTCTCTAGCAAGGGAGTAATATTATG
66 CCAAGTTTATCC-TAACTCCGAGCTTGAGGACAAGCTCTTTCTCTAGCAAGGGAGTAATATTATG
* *
1971107 GGCTGAATCTAT
130 AGCCGAATCTAT
* * * * * *
1971119 AACAAGTTTGTGTAGGTCCACGACCCATATCGGTTTTGAC---T--TAATG-AGGGGACCTTTCT
1 AATAAGTTTGTGTAGGTCCACAACCCCTATCGGTTTCGACTATTAGTAATGAAAGGGACCTTTCG
* * *
1971178 CCAAGTTTATCCTAGCTCCGAGCTTGAGGACAAGCTCTTTCTCTAGCAAGGGAGTGATATTATGG
66 CCAAGTTTATCCTAACTCCGAGCTTGAGGACAAGCTCTTTCTCTAGCAAGGGAGTAATATTATGA
1971243 GCCGAATCTAT
131 GCCGAATCTAT
* * *
1971254 AATAAGTTTGGGTAGGTCCACAACACCTATCGGTTTCAACTATTAGTAATGAAAAGGG-CCTTTC
1 AATAAGTTTGTGTAGGTCCACAACCCCTATCGGTTTCGACTATTAGTAATG-AAAGGGACCTTTC
1971318 GCCAAGTTTATCCTAACTCCGAGAGCTTGAGGACAAGCTCTTTCTCTAGCAAGGGAGTAATATTA
65 GCCAAGTTTATCCTAACTCC--GAGCTTGAGGACAAGCTCTTTCTCTAGCAAGGGAGTAATATTA
1971383 TGAGCCGAATCTAT
128 TGAGCCGAATCTAT
* ** * * *
1971397 TATAAGTTTGTGTAGGTCCACAACCGTTATCGGTTTCGACTATTAGTAACG-AGGGGACCTTTCC
1 AATAAGTTTGTGTAGGTCCACAACCCCTATCGGTTTCGACTATTAGTAATGAAAGGGACCTTTCG
* *
1971461 CCAAGTTTATCCTAACTCCAAGCTTGAGGACAAGTTCTTTCTCTAGCAAGG
66 CCAAGTTTATCCTAACTCCGAGCTTGAGGACAAGCTCTTTCTCTAGCAAGG
1971512 AGGTGACTTA
Statistics
Matches: 881, Mismatches: 187, Indels: 139
0.73 0.15 0.12
Matches are distributed among these distances:
135 91 0.10
136 22 0.02
137 4 0.00
138 1 0.00
139 1 0.00
140 40 0.05
141 205 0.23
142 247 0.28
143 101 0.11
144 3 0.00
145 2 0.00
146 3 0.00
147 3 0.00
148 2 0.00
149 4 0.00
150 3 0.00
151 1 0.00
152 12 0.01
153 4 0.00
154 10 0.01
155 5 0.01
156 11 0.01
157 11 0.01
158 5 0.01
159 6 0.01
160 5 0.01
161 5 0.01
162 11 0.01
163 11 0.01
164 5 0.01
165 11 0.01
166 2 0.00
167 10 0.01
168 1 0.00
169 4 0.00
170 4 0.00
171 2 0.00
172 3 0.00
173 2 0.00
174 3 0.00
175 2 0.00
176 2 0.00
177 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.32
Consensus pattern (141 bp):
AATAAGTTTGTGTAGGTCCACAACCCCTATCGGTTTCGACTATTAGTAATGAAAGGGACCTTTCG
CCAAGTTTATCCTAACTCCGAGCTTGAGGACAAGCTCTTTCTCTAGCAAGGGAGTAATATTATGA
GCCGAATCTAT
Found at i:1970656 original size:607 final size:601
Alignment explanation
Indices: 1969607--1971252 Score: 2204
Period size: 602 Copynumber: 2.7 Consensus size: 601
1969597 AGAACCGTGT
** *
1969607 TCAATGGTGCTAATAAATAAGAATAAGTTTGCATAGGTCCACGACCTCTATCAGTTTCGACTATT
1 TCAATGGTGCTAAT-AAT-AGAATAAGTTTGTGTAGGTCCACAACC-CTATCAGTTTCGACTATT
* * *
1969672 AGTAATGAAAGGGGCCTTTCGCCAAGTTTATCCTAACTCCAAGCTTGAGGACAAGCTTTTTCTCT
63 AGTAATGAAAGGGACCTTTCGCCAAGTTTATCCTAACTCCGAGCTTGAGGACAAGCTCTTTCTCT
* * * * *
1969737 GGCAAGGGAGTAATATTATGGGCTGAATCTATACTAAGTTTGTCTAGGTCCAAAACCCCTATCAG
128 AGCAAGGGAGTAATATTATGGGCTGAATCTATAATAAGTTTGTATAGGTCCACAACCCCTATCGG
* * ** *
1969802 TTTCGACTATTAGTAATGAAAGGGACCTAGTGCCAAGTTTATCCTAACTCCAAGCTTGAGGACAA
193 TTTCAACTATTAGTAATGGAAGGGACCTTTTGCCAAGTTTATCCTAACTCCGAGCTTGAGGACAA
* * * * *
1969867 GCTTTTTCTCTGGCAAGGGAGTAATATTATGGGCTGAATCTATACTAAGTTTGTCTAGGTCCAAA
258 GCTCTTTCTCTAGCAAGGGAGTAATATTATGGGCTGAATCTATAATAAGTTTGTGTAGGTCCAAG
* * *
1969932 ACCCCTATCAGTTTCGACTATTAGTAATGAAAGGGACCTAGT-GCCAAGTTTATCCTAACTCCAA
323 ACCCCTATCGGTTTCGACTATTAGTAATGAAAGGGACCT-TTCACCAAGTTTATCCTAACTCCAA
* * *
1969996 GCTTGAGGACAAGCTCTTTCTCTAGCAAGGGACTGATCTTATGGGCTGAATCTACGTTAGGAAAG
387 GCTTGAGGACAAGCTCTTTCTCTAGCAAGGGAGTGATATTATGGGCCGAATCTACGTTAGGAAAG
* *
1970061 GCCATTAATTTTGATTCTCTAATTAAGGCTTAGGTTGCTATTTTATTTCTTTCCTTACATTTTGT
452 GCCATTAATTTTGATTCTCTAATTAAGGCTTAGGTTACTATTTTATTTCTTTCC-T-CA---GGT
* *
1970126 TGCGATTTTATTTCAATTGATTTAATTCCTTTCTAGAATAGGCTTCCTATTTACATAATAAGACT
512 TGCAATTTTATTTCAATTGATTTAATTCCTTTCTAGAATAGGCTTCCTATTTACACAATAAGACT
* *
1970191 -T-GTTA-AAAGGGTAGAGATGTAG
577 ATCCTTATAAAGGGTAAAGATGTAG
* *
1970213 TCAATGGTGCTAATACATGAGAATAAGTTTGTGTAGGTCCACAAACCCTATCGGTTTTGACTATT
1 TCAATGGTGCTAATA-AT-AGAATAAGTTTGTGTAGGTCCAC-AACCCTATCAGTTTCGACTATT
** *
1970278 AGTAATGAAAGGGACCTTTCGCCAAGTTTATTGTAACTCTGAGCTTGAGGACAAGCTCTTTCTCT
63 AGTAATGAAAGGGACCTTTCGCCAAGTTTATCCTAACTCCGAGCTTGAGGACAAGCTCTTTCTCT
* * ** * * * *
1970343 AGCAAGGGAGTAAAATTATGCGCCAAATCTATAATAAGTTTGTTTAAGTCTACGACCCCTATCGG
128 AGCAAGGGAGTAATATTATGGGCTGAATCTATAATAAGTTTGTATAGGTCCACAACCCCTATCGG
*
1970408 TTTCAACTATTAGTAATGGAAGGGACCTTTTGCCAAAGTTTATCCTAGCTCCGAGCTTGAGGACA
193 TTTCAACTATTAGTAATGGAAGGGACCTTTTGCC-AAGTTTATCCTAACTCCGAGCTTGAGGACA
* * * *
1970473 AGCTCTTTCTCTAGTAAGGGAGTAATATTATGAGCCGAATCTATAATAAGTTTGTGTAGGTCCAT
257 AGCTCTTTCTCTAGCAAGGGAGTAATATTATGGGCTGAATCTATAATAAGTTTGTGTAGGTCCAA
* * *
1970538 GACCCCTATCGGTTTCGACTATTAGTAACGAAAGGGACCTTTCACCAAGTTCATCTTAACTCCAA
322 GACCCCTATCGGTTTCGACTATTAGTAATGAAAGGGACCTTTCACCAAGTTTATCCTAACTCCAA
* * * * ** *
1970603 GCTTGAGGACAATCTTTTTCTCTAGCAAGGTAGTAATATTATCAGCCGAATCTATGTTAGGAAAG
387 GCTTGAGGACAAGCTCTTTCTCTAGCAAGGGAGTGATATTATGGGCCGAATCTACGTTAGGAAAG
* * *
1970668 GCTATTACTTTTGATTCTCTAATTAAGGCTTAGGTTACTATTTTTTTTCTTTCCTCAGGTTGCAA
452 GCCATTAATTTTGATTCTCTAATTAAGGCTTAGGTTACTATTTTATTTCTTTCCTCAGGTTGCAA
* *
1970733 TTTTATTTCAGTTGATTTAATTCCTTTCTAGAATAGGCTTCCTATTTACGCAATAAGACTAGTCC
517 TTTTATTTCAATTGATTTAATTCCTTTCTAGAATAGGCTTCCTATTTACACAATAAGACTA-TCC
* *
1970798 TTATTTAAGGGGTAAAGATGTAT
581 TTA--TAAAGGGTAAAGATGTAG
* * * * * *
1970821 TCAATGGTGCTAATAA-A-AA-AA-TTTGTGTAGGTCCATGAGCCCCATTAGTCTCGACGATTAG
1 TCAATGGTGCTAATAATAGAATAAGTTTGTGTAGGTCCA-CAACCCTATCAGTTTCGACTATTAG
1970882 TAATGAAAGGGACCTTTCGCCAAGTTTATCCTAACTCCGAGCTTGAGGACAAGCTCTTTCTCTAG
65 TAATGAAAGGGACCTTTCGCCAAGTTTATCCTAACTCCGAGCTTGAGGACAAGCTCTTTCTCTAG
* * *
1970947 CAAGGGAGTAATATTATGGGTTGAATCTATAATAAGCTTGTATGGGTCCACAACCCCTATCGGTT
130 CAAGGGAGTAATATTATGGGCTGAATCTATAATAAGTTTGTATAGGTCCACAACCCCTATCGGTT
* ** * * * *
1971012 TCAACTATTAGCAATGGAAGGGACCTTTCACCATGTTTATCCTTAACTCTGAGCCTGAGGAAAAG
195 TCAACTATTAGTAATGGAAGGGACCTTTTGCCAAGTTTATCC-TAACTCCGAGCTTGAGGACAAG
* *
1971077 CTCTTTCTCTAGCAAGGGAGTAATATTATGGGCTGAATCTATAACAAGTTTGTGTAGGTCCACGA
259 CTCTTTCTCTAGCAAGGGAGTAATATTATGGGCTGAATCTATAATAAGTTTGTGTAGGTCCAAGA
* * * * * *
1971142 CCCATATCGGTTTTGAC---T--TAATG-AGGGGACCTTTCTCCAAGTTTATCCTAGCTCCGAGC
324 CCCCTATCGGTTTCGACTATTAGTAATGAAAGGGACCTTTCACCAAGTTTATCCTAACTCCAAGC
1971201 TTGAGGACAAGCTCTTTCTCTAGCAAGGGAGTGATATTATGGGCCGAATCTA
389 TTGAGGACAAGCTCTTTCTCTAGCAAGGGAGTGATATTATGGGCCGAATCTA
1971253 TAATAAGTTT
Statistics
Matches: 910, Mismatches: 118, Indels: 34
0.86 0.11 0.03
Matches are distributed among these distances:
596 76 0.08
597 4 0.00
599 1 0.00
601 9 0.01
602 332 0.36
603 2 0.00
604 3 0.00
605 7 0.01
606 197 0.22
607 250 0.27
608 29 0.03
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (601 bp):
TCAATGGTGCTAATAATAGAATAAGTTTGTGTAGGTCCACAACCCTATCAGTTTCGACTATTAGT
AATGAAAGGGACCTTTCGCCAAGTTTATCCTAACTCCGAGCTTGAGGACAAGCTCTTTCTCTAGC
AAGGGAGTAATATTATGGGCTGAATCTATAATAAGTTTGTATAGGTCCACAACCCCTATCGGTTT
CAACTATTAGTAATGGAAGGGACCTTTTGCCAAGTTTATCCTAACTCCGAGCTTGAGGACAAGCT
CTTTCTCTAGCAAGGGAGTAATATTATGGGCTGAATCTATAATAAGTTTGTGTAGGTCCAAGACC
CCTATCGGTTTCGACTATTAGTAATGAAAGGGACCTTTCACCAAGTTTATCCTAACTCCAAGCTT
GAGGACAAGCTCTTTCTCTAGCAAGGGAGTGATATTATGGGCCGAATCTACGTTAGGAAAGGCCA
TTAATTTTGATTCTCTAATTAAGGCTTAGGTTACTATTTTATTTCTTTCCTCAGGTTGCAATTTT
ATTTCAATTGATTTAATTCCTTTCTAGAATAGGCTTCCTATTTACACAATAAGACTATCCTTATA
AAGGGTAAAGATGTAG
Found at i:1976823 original size:23 final size:23
Alignment explanation
Indices: 1976792--1976845 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
1976782 TGTTAAAAAT
*
1976792 TTTATTCTCGTACAAGTTTACTC
1 TTTAATCTCGTACAAGTTTACTC
1976815 TTTAATCTCGTACAAGTTTACTC
1 TTTAATCTCGTACAAGTTTACTC
1976838 TTTAATCT
1 TTTAATCT
1976846 AAATAGATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.24, C:0.20, G:0.07, T:0.48
Consensus pattern (23 bp):
TTTAATCTCGTACAAGTTTACTC
Found at i:1991730 original size:18 final size:16
Alignment explanation
Indices: 1991709--1991743 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
1991699 AATTATTATT
1991709 ATATTTAAGTTAAATTAA
1 ATATTTAA-TT-AATTAA
1991727 ATATTTAATTAATTAA
1 ATATTTAATTAATTAA
1991743 A
1 A
1991744 GTCAGATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 2 0.12
18 8 0.47
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (16 bp):
ATATTTAATTAATTAA
Found at i:1992904 original size:30 final size:30
Alignment explanation
Indices: 1992859--1992915 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
1992849 AATTGAATCA
*
1992859 ATTTTCTTTATTTTTAA-AATATATTTTTT
1 ATTTTCTTAATTTTTAATAATATATTTTTT
*
1992888 ATTTTCATTAATTTTTAATAATTTATTT
1 ATTTTC-TTAATTTTTAATAATATATTT
1992916 AGTCGAACCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 6 0.25
30 10 0.42
31 8 0.33
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.67
Consensus pattern (30 bp):
ATTTTCTTAATTTTTAATAATATATTTTTT
Found at i:2009852 original size:19 final size:20
Alignment explanation
Indices: 2009825--2009865 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
2009815 CTTCATTCCA
* *
2009825 TTTATTTTATTAATA-ATTT
1 TTTAATTTAATAATATATTT
2009844 TTTAATTTAATAATATATTT
1 TTTAATTTAATAATATATTT
2009864 TT
1 TT
2009866 AAGTTTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTAATTTAATAATATATTT
Found at i:2013471 original size:99 final size:98
Alignment explanation
Indices: 2013355--2013554 Score: 373
Period size: 99 Copynumber: 2.0 Consensus size: 98
2013345 ATTTTTAAAC
2013355 TAATCGTAAATAAATGGGTCAAAAATGATTAATATGGGATTAAGTTTAAAAATTTATTCGATATT
1 TAATCGTAAATAAATGGGTCAAAAATGATTAATATGGGATTAAGTTTAAAAATTTATTCGATATT
2013420 TGAGATATTTGATATTGAGAAATGTGTTTGGCTG
66 TGAGATATTTGATATTG-GAAATGTGTTTGGCTG
*
2013454 TAATTGTAAATAAATGGGTCAAAAATGATTAATATGGGATTAAGTTTAAAAATTTATTCGATATT
1 TAATCGTAAATAAATGGGTCAAAAATGATTAATATGGGATTAAGTTTAAAAATTTATTCGATATT
*
2013519 TGAGATATTTGATCTTGGAAATGTGTTTGGCTG
66 TGAGATATTTGATATTGGAAATGTGTTTGGCTG
2013552 TAA
1 TAA
2013555 CATCCAATAT
Statistics
Matches: 99, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
98 19 0.19
99 80 0.81
ACGTcount: A:0.37, C:0.04, G:0.20, T:0.39
Consensus pattern (98 bp):
TAATCGTAAATAAATGGGTCAAAAATGATTAATATGGGATTAAGTTTAAAAATTTATTCGATATT
TGAGATATTTGATATTGGAAATGTGTTTGGCTG
Found at i:2016747 original size:20 final size:20
Alignment explanation
Indices: 2016719--2016757 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2016709 GTATAATATA
* *
2016719 TTAAGAATATTATTTAAATT
1 TTAAAAATATTATTAAAATT
2016739 TTAAAAATATTATTAAAAT
1 TTAAAAATATTATTAAAAT
2016758 AAAATTGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (20 bp):
TTAAAAATATTATTAAAATT
Found at i:2025305 original size:11 final size:11
Alignment explanation
Indices: 2025289--2025330 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
2025279 TAGTTATTTA
2025289 TAATAAAATAT
1 TAATAAAATAT
2025300 TAATAAAATAT
1 TAATAAAATAT
*
2025311 CTCATTAAAATAT
1 -T-AATAAAATAT
2025324 TAATAAA
1 TAATAAA
2025331 GTAATATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 16 0.59
12 2 0.07
13 9 0.33
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (11 bp):
TAATAAAATAT
Done.