Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
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: 12923621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 65
Found at i:1331137 original size:18 final size:18
Alignment explanation
Indices: 1331116--1331160 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
1331106 CTCAACTGCA
1331116 TCCACTGCCTCCACTTCC
1 TCCACTGCCTCCACTTCC
*
1331134 TCCACTACCTCCACTTCC
1 TCCACTGCCTCCACTTCC
*
1331152 TCCTCTGCC
1 TCCACTGCC
1331161 GCCTCTACCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.11, C:0.56, G:0.04, T:0.29
Consensus pattern (18 bp):
TCCACTGCCTCCACTTCC
Found at i:1331434 original size:22 final size:23
Alignment explanation
Indices: 1331406--1331460 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
1331396 AACCTGCATT
*
1331406 TATAATAAAAT-TTATCATTTTA
1 TATAATAAAATACTATCATTTTA
*
1331428 TATAATAACTATACTATCATTTTA
1 TATAATAA-AATACTATCATTTTA
1331452 TATAA-AAAA
1 TATAATAAAA
1331461 CAAAAACGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 9 0.32
23 4 0.14
24 15 0.54
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (23 bp):
TATAATAAAATACTATCATTTTA
Found at i:1333001 original size:25 final size:25
Alignment explanation
Indices: 1332973--1333024 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
1332963 TCTACCTATA
1332973 ATATTAAATAAAAGTATCGATATTT
1 ATATTAAATAAAAGTATCGATATTT
1332998 ATATTAAATAAAAGTATCGATATTT
1 ATATTAAATAAAAGTATCGATATTT
1333023 AT
1 AT
1333025 CATCTACCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (25 bp):
ATATTAAATAAAAGTATCGATATTT
Found at i:1333731 original size:182 final size:182
Alignment explanation
Indices: 1333424--1334263 Score: 1420
Period size: 182 Copynumber: 4.6 Consensus size: 182
1333414 TACGCGTACT
* * *
1333424 TATTAAAGTATCGACACTTTCAACATATTCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGATCG
1 TATTAAAGTATCGATACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCG
* * *
1333489 GTTTTGTCATTTTTTTACCTATTATATTATTATGGATCGATACATTTTTATAAAGTATCGACACT
66 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
* *
1333554 TTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
131 TTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
*
1333606 TATTAAAGTATCGATACTGTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCG
1 TATTAAAGTATCGATACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCG
1333671 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
66 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
1333736 TTATAGGCGCTATAA---CTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
131 TTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* * *
1333785 TATTAAAGTATCGACACTGTCAACATATCCAGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCG
1 TATTAAAGTATCGATACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCG
1333850 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
66 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
1333915 TTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
131 TTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
*
1333967 TATTAAAGTATCGATACTTTCAACATAACCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCG
1 TATTAAAGTATCGATACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCG
1334032 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
66 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
* * *
1334097 TTATAGGCGCTATAATTTCTTCTCTTTTAAATTTCATAAGTGTCGATACTTA
131 TTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* * * * *
1334149 T-TTAAATCTAATCGATACTTTCAACATATCCAGTAGCGCTTTACCGGTTTTATCATAAT-GAAA
1 TATTAAA-GT-ATCGATACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCAT-TTCGAGA
*
1334212 CCGGTTTTGTCATATTTTTACCTGTTATATTGCTATGGATCGATACATTTTT
63 CCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
1334264 CACTTGTATC
Statistics
Matches: 628, Mismatches: 24, Indels: 11
0.95 0.04 0.02
Matches are distributed among these distances:
179 177 0.28
181 5 0.01
182 348 0.55
183 97 0.15
184 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (182 bp):
TATTAAAGTATCGATACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCG
GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
TTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
Found at i:1334088 original size:361 final size:362
Alignment explanation
Indices: 1333424--1334263 Score: 1443
Period size: 361 Copynumber: 2.3 Consensus size: 362
1333414 TACGCGTACT
* * *
1333424 TATTAAAGTATCGACACTTTCAACATATTCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGATCG
1 TATTAAAGTATCGACACTTTCAACATATCCAGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCG
* * *
1333489 GTTTTGTCATTTTTTTACCTATTATATTATTATGGATCGATACATTTTTATAAAGTATCGACACT
66 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
*
1333554 TTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATCG
131 TTATAGGCGCTATAACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATCG
*
1333619 ATACTGTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATT
196 ATACTGTCAACATAACCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATT
1333684 TTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCGCTAT
261 TTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCGCTAT
1333749 AA-CTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
326 AATCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
*
1333785 TATTAAAGTATCGACACTGTCAACATATCCAGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCG
1 TATTAAAGTATCGACACTTTCAACATATCCAGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCG
1333850 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
66 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
*
1333915 TTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATCG
131 TTATAGGCGCTATAACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATCG
*
1333980 ATACTTTCAACATAACCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATT
196 ATACTGTCAACATAACCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATT
1334045 TTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCGCTAT
261 TTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCGCTAT
* *
1334110 AATTTCTTCTCTTTTAAATTTCATAAGTGTCGATACTTA
326 AA--TCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* * * * *
1334149 T-TTAAATCTAATCGATACTTTCAACATATCCAGTAGCGCTTTACCGGTTTTATCATAAT-GAAA
1 TATTAAA-GT-ATCGACACTTTCAACATATCCAGTAGCGCTTTACCGGTTTTGTCAT-TTCGAGA
*
1334212 CCGGTTTTGTCATATTTTTACCTGTTATATTGCTATGGATCGATACATTTTT
63 CCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
1334264 CACTTGTATC
Statistics
Matches: 453, Mismatches: 20, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
361 316 0.70
363 5 0.01
364 34 0.08
365 97 0.21
366 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (362 bp):
TATTAAAGTATCGACACTTTCAACATATCCAGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCG
GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
TTATAGGCGCTATAACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATCG
ATACTGTCAACATAACCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATT
TTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCGCTAT
AATCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
Found at i:1344716 original size:22 final size:22
Alignment explanation
Indices: 1344681--1344736 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
1344671 GTCGGATAGT
* *
1344681 TACC-AACAGCGGCAGAACAGG
1 TACCAAACAGTGGCAGAACAGA
*
1344702 TACCAAACAGTGGCAGAATAGA
1 TACCAAACAGTGGCAGAACAGA
*
1344724 TACCAAACGGTGG
1 TACCAAACAGTGG
1344737 AACATGAAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 4 0.13
22 26 0.87
ACGTcount: A:0.39, C:0.23, G:0.27, T:0.11
Consensus pattern (22 bp):
TACCAAACAGTGGCAGAACAGA
Found at i:1348823 original size:23 final size:23
Alignment explanation
Indices: 1348792--1348864 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 23
1348782 GGTTTGGACC
* *
1348792 GGTTCGGGTCTTGGCTTGAGGTT
1 GGTTTGGGTCTTGGCTTGAGGCT
* *
1348815 GGTTTGGGTCTTGTCTTGAGGCC
1 GGTTTGGGTCTTGGCTTGAGGCT
* * *
1348838 AGTGTGGGTCTTGGCTTGGGGCT
1 GGTTTGGGTCTTGGCTTGAGGCT
1348861 GGTT
1 GGTT
1348865 CAGGTCTGAA
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.04, C:0.14, G:0.44, T:0.38
Consensus pattern (23 bp):
GGTTTGGGTCTTGGCTTGAGGCT
Found at i:1349654 original size:228 final size:227
Alignment explanation
Indices: 1349286--1349908 Score: 962
Period size: 228 Copynumber: 2.7 Consensus size: 227
1349276 GAGTGATGCT
*
1349286 TTGCTGATTTGAAGTGTTATGAATCGAGCAAAGGAAATG-TGAAAACATCCTGCCCGAAGGTCTT
1 TTGCTGATTCGAAGTGTTATGAATCGAGCAAAGGAAATGTTGAAAACATCCTGCCCGAAGGTCTT
* *
1349350 ATGGATGGCCCGAAGACTTATCATCTTGCTCGAAAT-ACTTATAGGTGACCCGAAGGATTGAAGC
66 ATGGATGGCCCGAAGACTTATCATCTTGCTCG-AATGACTTATAGATGACCCGAAGGATTTAAGC
* * *
1349414 ATCATGCTCGAAAGATTTACTAATGGCCCGAAGGACTTAAGCTGATTCGAAGTGTTGTGAATCAA
130 ATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAAGCTGATTCGAAGAGTTGTGAATCAA
*
1349479 GTAATAGGAAATGATAACCCCTCTAGTGGGGCA
195 GAAATAGGAAATGATAACCCCTCTAGTGGGGCA
* * * *
1349512 TTGGTGATTCGAAGTGTTGTGAATCTAGCAAAGGAAATGTTGAAAACATCCTGCCCGATGGTCTT
1 TTGCTGATTCGAAGTGTTATGAATCGAGCAAAGGAAATGTTGAAAACATCCTGCCCGAAGGTCTT
*
1349577 ATGGATGGCCCGAAGGACTTATCATCTTGCTCGAATGACTTATAGATGACCCGAAGGATTTAAAC
66 ATGGATGGCCCGAA-GACTTATCATCTTGCTCGAATGACTTATAGATGACCCGAAGGATTTAAGC
** * *
1349642 ATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTTTGCTGATTTGAAGAGTTGTGAATCGA
130 ATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAAGCTGATTCGAAGAGTTGTGAATCAA
* * *
1349707 GAAATAGGAAATGTTAACCCCTCTGGTGGGGCG
195 GAAATAGGAAATGATAACCCCTCTAGTGGGGCA
* *
1349740 TTGCTGATTCGAAGTGTTATGAATAGAGCAAAGGAAATGTTGAAAACATCCTGCCTGAAGGTCTT
1 TTGCTGATTCGAAGTGTTATGAATCGAGCAAAGGAAATGTTGAAAACATCCTGCCCGAAGGTCTT
* * * * *
1349805 ATAGATGGCCCGAAAGACTTATTATCTTGTTCGAAAGACTTATAGATGACCCAAAGGATTTAAGC
66 ATGGATGGCCCG-AAGACTTATCATCTTGCTCGAATGACTTATAGATGACCCGAAGGATTTAAGC
*
1349870 ATCATGCTCGAAAGCCTTACTGATGGCCCGAAGGACTTA
130 ATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTA
1349909 CTCATCAAGA
Statistics
Matches: 360, Mismatches: 33, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
226 35 0.10
227 41 0.11
228 282 0.78
229 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.27
Consensus pattern (227 bp):
TTGCTGATTCGAAGTGTTATGAATCGAGCAAAGGAAATGTTGAAAACATCCTGCCCGAAGGTCTT
ATGGATGGCCCGAAGACTTATCATCTTGCTCGAATGACTTATAGATGACCCGAAGGATTTAAGCA
TCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAAGCTGATTCGAAGAGTTGTGAATCAAG
AAATAGGAAATGATAACCCCTCTAGTGGGGCA
Found at i:1349660 original size:42 final size:40
Alignment explanation
Indices: 1349574--1349679 Score: 131
Period size: 42 Copynumber: 2.5 Consensus size: 40
1349564 GCCCGATGGT
* * *
1349574 CTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAATGA
1 CTTAT-GATGGCCCGAAGGACTTAACATCATGCTCGAAAGA
* *
1349615 CTTATAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGA
1 CTTAT-GATGGCCCGAAGGACTT-AACATCATGCTCGAAAGA
1349657 CTTACTGATGGCCCGAAGGACTT
1 CTTA-TGATGGCCCGAAGGACTT
1349680 TTGCTGATTT
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
41 20 0.36
42 34 0.62
43 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (40 bp):
CTTATGATGGCCCGAAGGACTTAACATCATGCTCGAAAGA
Found at i:1349915 original size:42 final size:41
Alignment explanation
Indices: 1349802--1349915 Score: 113
Period size: 42 Copynumber: 2.7 Consensus size: 41
1349792 GCCTGAAGGT
* * * *
1349802 CTTATAGATGGCCCGAAAGACTTATTATCTTGTTCGAAAGA
1 CTTATAGATGGCCCGAAGGACTTATCATCATGCTCGAAAGA
* * * * *
1349843 CTTATAGATGACCCAAAGGATTTAAGCATCATGCTCGAAAGC
1 CTTATAGATGGCCCGAAGGACTT-ATCATCATGCTCGAAAGA
1349885 CTTACT-GATGGCCCGAAGGACTTACTCATCA
1 CTTA-TAGATGGCCCGAAGGACTTA-TCATCA
1349916 AGAAACCCTT
Statistics
Matches: 57, Mismatches: 13, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
41 20 0.35
42 36 0.63
43 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (41 bp):
CTTATAGATGGCCCGAAGGACTTATCATCATGCTCGAAAGA
Found at i:1350039 original size:57 final size:56
Alignment explanation
Indices: 1349967--1350165 Score: 230
Period size: 58 Copynumber: 3.6 Consensus size: 56
1349957 GTTTTCAGTT
*
1349967 ATCATCAAGAAACCCCTAAAAATTAGGCTTAGTTTATTTAAAAATTATTTGGAAATA
1 ATCATCAAGAAACCCCTAAAAATCAGGCTTAGTTT-TTTAAAAATTATTTGGAAATA
* * *
1350024 ATCATCAAGAAACCCCTGAAAATCAGGCTTAGCTTCTTTTTAAAATTCA-TTGGAAATC
1 ATCATCAAGAAACCCCTAAAAATCAGGCTTAG-TT-TTTTAAAAATT-ATTTGGAAATA
* * *
1350082 ACCATCAAGAAACCCCTAAAAATCAGGCTTAG-TTTCTAAAAACTCATTT-G-AA-A
1 ATCATCAAGAAACCCCTAAAAATCAGGCTTAGTTTTTTAAAAA-TTATTTGGAAATA
* *
1350135 AT-ATCAAGAAACCCCTAAAAATTAGCCTTAG
1 ATCATCAAGAAACCCCTAAAAATCAGGCTTAG
1350166 CTTCCTTTAA
Statistics
Matches: 124, Mismatches: 13, Indels: 15
0.82 0.09 0.10
Matches are distributed among these distances:
52 27 0.22
53 1 0.01
54 2 0.02
55 9 0.07
56 4 0.03
57 30 0.24
58 49 0.40
59 2 0.02
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.29
Consensus pattern (56 bp):
ATCATCAAGAAACCCCTAAAAATCAGGCTTAGTTTTTTAAAAATTATTTGGAAATA
Found at i:1350097 original size:58 final size:54
Alignment explanation
Indices: 1349969--1350194 Score: 226
Period size: 58 Copynumber: 4.1 Consensus size: 54
1349959 TTTCAGTTAT
*
1349969 CATCAAGAAACCCCTAAAAATTAGGCTTAGTTTATTTAAAAATT-ATTTGGAAATAA
1 CATCAAGAAACCCCTAAAAATCAGGCTTAGTTT-TTTAAAAATTCA-TTGGAAAT-A
* *
1350025 TCATCAAGAAACCCCTGAAAATCAGGCTTAGCTTCTTTTTAAAATTCATTGGAAATCA
1 -CATCAAGAAACCCCTAAAAATCAGGCTTAG-TT-TTTTAAAAATTCATTGGAAAT-A
* * *
1350083 CCATCAAGAAACCCCTAAAAATCAGGCTTAG-TTTCTAAAAACTCATTTGAAA-A
1 -CATCAAGAAACCCCTAAAAATCAGGCTTAGTTTTTTAAAAATTCATTGGAAATA
* * * * * *
1350136 TATCAAGAAACCCCTAAAAATTAGCCTTAGCTTCCTTTAAAAGTTCATTTGAAA-A
1 CATCAAGAAACCCCTAAAAATCAGGCTTAG-TT-TTTTAAAAATTCATTGGAAATA
1350191 CATC
1 CATC
1350195 TTATCAAGGA
Statistics
Matches: 145, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
52 27 0.19
53 1 0.01
54 1 0.01
55 36 0.25
56 1 0.01
57 28 0.19
58 49 0.34
59 2 0.01
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (54 bp):
CATCAAGAAACCCCTAAAAATCAGGCTTAGTTTTTTAAAAATTCATTGGAAATA
Found at i:1350183 original size:110 final size:115
Alignment explanation
Indices: 1349969--1350189 Score: 303
Period size: 110 Copynumber: 2.0 Consensus size: 115
1349959 TTTCAGTTAT
* * *
1349969 CATCAAGAAACCCCTAAAAATTAGGCTTAGTTTATTTAAAAATTATTTGGAAATAATCATCAAGA
1 CATCAAGAAACCCCTAAAAATCAGGCTTAGTTTATCTAAAAATCATTTGGAAATAATCATCAAGA
* * *
1350034 AACCCCTGAAAATCAGGCTTAGCTTCTTTTTAAAATTCATTGGAAATCAC
66 AACCCCTAAAAATCAGCCTTAGCTTCTCTTTAAAATTCATTGGAAATCAC
1350084 CATCAAGAAACCCCTAAAAATCAGGCTTAG-TT-TCTAAAAACTCATTT-G-AA-AAT-ATCAAG
1 CATCAAGAAACCCCTAAAAATCAGGCTTAGTTTATCTAAAAA-TCATTTGGAAATAATCATCAAG
* *
1350143 AAACCCCTAAAAATTAGCCTTAGCTTC-CTTTAAAAGTTCATTTGAAA
65 AAACCCCTAAAAATCAGCCTTAGCTTCTCTTTAAAA-TTCATTGGAAA
1350190 ACATCTTATC
Statistics
Matches: 96, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
109 7 0.07
110 40 0.42
111 3 0.03
112 2 0.02
113 8 0.08
114 7 0.07
115 29 0.30
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (115 bp):
CATCAAGAAACCCCTAAAAATCAGGCTTAGTTTATCTAAAAATCATTTGGAAATAATCATCAAGA
AACCCCTAAAAATCAGCCTTAGCTTCTCTTTAAAATTCATTGGAAATCAC
Found at i:1358395 original size:27 final size:27
Alignment explanation
Indices: 1358365--1358504 Score: 72
Period size: 27 Copynumber: 5.2 Consensus size: 27
1358355 AAATTCATAA
1358365 TAAGTTTATGAACGACCGTATCGACAC
1 TAAGTTTATGAACGACCGTATCGACAC
* ** * * ** * *
1358392 TAAGTGTGCGACCCATGGTATTC-ATAA
1 TAAGTTTATGAACGACCGTA-TCGACAC
*
1358419 TAAGTTTATGAACGACCGTATCGGCAC
1 TAAGTTTATGAACGACCGTATCGACAC
* * * * *
1358446 TAAG-TT-TGCAACCCACGGAATTC-ATAA
1 TAAGTTTATG-AA-CGACCGTA-TCGACAC
*
1358473 TAAGTTTATGAACGACCGTATTGACAC
1 TAAGTTTATGAACGACCGTATCGACAC
1358500 TAAGT
1 TAAGT
1358505 GTGCAACCCA
Statistics
Matches: 74, Mismatches: 31, Indels: 16
0.61 0.26 0.13
Matches are distributed among these distances:
25 2 0.03
26 7 0.09
27 55 0.74
28 8 0.11
29 2 0.03
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (27 bp):
TAAGTTTATGAACGACCGTATCGACAC
Found at i:1358530 original size:27 final size:27
Alignment explanation
Indices: 1358446--1358531 Score: 68
Period size: 27 Copynumber: 3.2 Consensus size: 27
1358436 GTATCGGCAC
*
1358446 TAAGTTTGCAACCCACGGAATTCATAA
1 TAAGTATGCAACCCACGGAATTCATAA
* * * * * *
1358473 TAAGTTTATG-AA-CGACCGTATTGACAC
1 TAAG--TATGCAACCCACGGAATTCATAA
*
1358500 TAAGTGTGCAACCCACGGAATTCATAA
1 TAAGTATGCAACCCACGGAATTCATAA
1358527 TAAGT
1 TAAGT
1358532 TAATGAACGA
Statistics
Matches: 41, Mismatches: 14, Indels: 8
0.65 0.22 0.13
Matches are distributed among these distances:
25 3 0.07
26 2 0.05
27 31 0.76
28 2 0.05
29 3 0.07
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (27 bp):
TAAGTATGCAACCCACGGAATTCATAA
Found at i:1358617 original size:54 final size:54
Alignment explanation
Indices: 1358111--1358601 Score: 659
Period size: 54 Copynumber: 9.1 Consensus size: 54
1358101 TATTGCATTT
* *
1358111 ACCGAATCGACACTAAGTGTGCAACCCAC-AGAATTCATAGTAAGTTTATGAACG
1 ACCGTATCGACACTAAGTGTGCAACCCACGA-AATTCATAATAAGTTTATGAACG
*
1358165 ACCGTATCGACACTAAGTGTG--ACCCACGAAATTCATAATAAGTTTATGAACA
1 ACCGTATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACG
* * ** *
1358217 ACTGTATCGGCACTAAGTGTGTGACCCAC-AGAATTCATAATACGTTTATGAACG
1 ACCGTATCGACACTAAGTGTGCAACCCACGA-AATTCATAATAAGTTTATGAACG
*
1358271 ACCGTATCGACACTAAGTGTGCGACCCACGAAATTCATAATAAGTTTATGAACG
1 ACCGTATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACG
* *
1358325 ACCGTAAT-GACACTTAGTGTGCGACCCACGAAATTCATAATAAGTTTATGAACG
1 ACCGT-ATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACG
* * **
1358379 ACCGTATCGACACTAAGTGTGCGACCCATGGTATTCATAATAAGTTTATGAACG
1 ACCGTATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACG
* * *
1358433 ACCGTATCGGCACTAAGTTTGCAACCCACGGAATTCATAATAAGTTTATGAACG
1 ACCGTATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACG
* * *
1358487 ACCGTATTGACACTAAGTGTGCAACCCACGGAATTCATAATAAGTTAATGAACG
1 ACCGTATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACG
* * * * * * * *
1358541 AACGTATCGGCACTAAATGTGCAACCCACAAAATTTATAATGAGCTTATGAATG
1 ACCGTATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACG
1358595 ACCGTAT
1 ACCGTAT
1358602 TGGCACTACA
Statistics
Matches: 393, Mismatches: 37, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
52 46 0.12
53 4 0.01
54 340 0.87
55 3 0.01
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.25
Consensus pattern (54 bp):
ACCGTATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACG
Found at i:1360788 original size:23 final size:24
Alignment explanation
Indices: 1360725--1360788 Score: 80
Period size: 23 Copynumber: 2.8 Consensus size: 24
1360715 ACATTTTATA
1360725 TGGCACTTC-AGTGCA-TTCATACG
1 TGGCACTTCGA-TGCATTTCATACG
* *
1360748 CGGCACTTCGGTGCATTTC-TACG
1 TGGCACTTCGATGCATTTCATACG
1360771 TGGCACTTCGATGCATTT
1 TGGCACTTCGATGCATTT
1360789 TGTACGAGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
23 32 0.91
24 3 0.09
ACGTcount: A:0.17, C:0.27, G:0.23, T:0.33
Consensus pattern (24 bp):
TGGCACTTCGATGCATTTCATACG
Found at i:1363327 original size:54 final size:54
Alignment explanation
Indices: 1363184--1363533 Score: 393
Period size: 54 Copynumber: 6.5 Consensus size: 54
1363174 TATTGTATTT
* * * *
1363184 ACCGAATCGACACTAAGTGTGCAACCCATGGAATTCATAATAAGTTTATGAACG
1 ACCGTATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAATG
* * * * *
1363238 ACCAT-TTGACACTAAGTATGCAACCCACGGAATTCATAATAACTTTATGAATG
1 ACCGTATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAATG
* * * *
1363291 ACCGTATCGACACTAAGTGTGAAACCTACGAAATTCATAATAAGTATATGAACG
1 ACCGTATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAATG
*** * *
1363345 ACCG-AAAAACACTAAGTGTGCAACCCACGGAATTCATAATTAGTTTATGAATG
1 ACCGTATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAATG
* *
1363398 ACCGTATCGGCACTAAGTGTGTAACCCAC-AGAATTCATAATAAGTTTATGAATG
1 ACCGTATCGACACTAAGTGTGCAACCCACGA-AATTCATAATAAGTTTATGAATG
* * * *
1363452 ACCATATCGACACTAAGTGTGCAACCTACGAAATTTATAA-AGAGCTTATGAATG
1 ACCGTATCGACACTAAGTGTGCAACCCACGAAATTCATAATA-AGTTTATGAATG
* * * * *
1363506 ATCGTATCGGCATTACGTGTGCACCCCA
1 ACCGTATCGACACTAAGTGTGCAACCCA
1363534 AAGAACTTAC
Statistics
Matches: 246, Mismatches: 45, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
53 92 0.37
54 153 0.62
55 1 0.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (54 bp):
ACCGTATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAATG
Found at i:1363375 original size:107 final size:107
Alignment explanation
Indices: 1363184--1363514 Score: 409
Period size: 107 Copynumber: 3.1 Consensus size: 107
1363174 TATTGTATTT
* * * * **
1363184 ACCGAATCGACACTAAGTGTGCAACCCATGGAATTCATAATAAGTTTATGAACGACCATTTGACA
1 ACCGTATCGACACTAAGTGTGAAACCCACGAAATTCATAATAAGTTTATGAACGACCATAAGACA
*
1363249 CTAAGTATGCAACCCACGGAATTCATAATAACTTTATGAATG
66 CTAAGTGTGCAACCCACGGAATTCATAATAACTTTATGAATG
* * *
1363291 ACCGTATCGACACTAAGTGTGAAACCTACGAAATTCATAATAAGTATATGAACGACCGA-AAAAC
1 ACCGTATCGACACTAAGTGTGAAACCCACGAAATTCATAATAAGTTTATGAACGACC-ATAAGAC
* *
1363355 ACTAAGTGTGCAACCCACGGAATTCATAATTAGTTTATGAATG
65 ACTAAGTGTGCAACCCACGGAATTCATAATAACTTTATGAATG
* * * *
1363398 ACCGTATCGGCACTAAGTGTGTAACCCAC-AGAATTCATAATAAGTTTATGAATGACCATATCGA
1 ACCGTATCGACACTAAGTGTGAAACCCACGA-AATTCATAATAAGTTTATGAACGACCATA-AGA
* * *
1363462 CACTAAGTGTGCAACCTACGAAATTTATAA-AGAGC-TTATGAATG
64 CACTAAGTGTGCAACCCACGGAATTCATAATA-A-CTTTATGAATG
*
1363506 ATCGTATCG
1 ACCGTATCG
1363515 GCATTACGTG
Statistics
Matches: 193, Mismatches: 25, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
106 2 0.01
107 144 0.75
108 47 0.24
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (107 bp):
ACCGTATCGACACTAAGTGTGAAACCCACGAAATTCATAATAAGTTTATGAACGACCATAAGACA
CTAAGTGTGCAACCCACGGAATTCATAATAACTTTATGAATG
Found at i:1369577 original size:54 final size:54
Alignment explanation
Indices: 1369495--1369776 Score: 419
Period size: 54 Copynumber: 5.2 Consensus size: 54
1369485 CCGAATCGAC
*
1369495 ACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACAACCGTATCGGA
1 ACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCGGA
1369549 ACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATC-GA
1 ACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCGGA
* *
1369602 CACTAAGTGTGCAACCTAC-ATAA-TCATAATAAGTTTATGAACGACCGTAT-AGA
1 -ACTAAGTGTGCAACCCACGA-AATTCATAATAAGTTTATGAACGACCGTATCGGA
* *
1369655 CACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCGTATCGGC
1 -ACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCGGA
* * * *
1369710 ACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAATGACCGTATAGGC
1 ACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCGGA
*
1369764 ACTAAGTATGCAA
1 ACTAAGTGTGCAA
1369777 AGTTTATGAA
Statistics
Matches: 212, Mismatches: 10, Indels: 12
0.91 0.04 0.05
Matches are distributed among these distances:
53 52 0.25
54 159 0.75
55 1 0.00
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (54 bp):
ACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCGGA
Found at i:1369679 original size:107 final size:107
Alignment explanation
Indices: 1369484--1369776 Score: 446
Period size: 107 Copynumber: 2.7 Consensus size: 107
1369474 TATTGCATTT
* * *
1369484 ACCGAATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACAACCGTATCGGA
1 ACCGTATCGACACTAAGTGTGCAACCCAC-AAATTCATAATAAGTTTATGAACGACCGTAT-AGA
*
1369549 -ACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACG
64 CACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACG
*
1369592 ACCGTATCGACACTAAGTGTGCAACCTACATAA-TCATAATAAGTTTATGAACGACCGTATAGAC
1 ACCGTATCGACACTAAGTGTGCAACCCACA-AATTCATAATAAGTTTATGAACGACCGTATAGAC
1369656 ACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACG
65 ACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACG
* * * *
1369699 ACCGTATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAATGACCGTATAGGC
1 ACCGTATCGACACTAAGTGTGCAACCCAC-AAATTCATAATAAGTTTATGAACGACCGTATAGAC
*
1369764 ACTAAGTATGCAA
65 ACTAAGTGTGCAA
1369777 AGTTTATGAA
Statistics
Matches: 170, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
106 2 0.01
107 98 0.58
108 70 0.41
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (107 bp):
ACCGTATCGACACTAAGTGTGCAACCCACAAATTCATAATAAGTTTATGAACGACCGTATAGACA
CTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACG
Found at i:1369839 original size:90 final size:90
Alignment explanation
Indices: 1369686--1369866 Score: 290
Period size: 90 Copynumber: 2.0 Consensus size: 90
1369676 AATTCATAAT
* *
1369686 AAGTTTATGAACGACCGTATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAA
1 AAGTTTATGAACGACCGTATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAA
*
1369751 TGACCGTATAGGCACTAAGTATGCA
66 CGACCGTATAGGCACTAAGTATGCA
* *
1369776 AAGTTTATGAATGACCGTATCGACACTAAGTGTGTAACCCACGAAATTCATAATAAGTTTATGAA
1 AAGTTTATGAACGACCGTATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAA
* * *
1369841 CGACCGTATCGGTACTAAGTGTGCA
66 CGACCGTATAGGCACTAAGTATGCA
1369866 A
1 A
1369867 CCCACGAAGT
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 83 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (90 bp):
AAGTTTATGAACGACCGTATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAA
CGACCGTATAGGCACTAAGTATGCA
Found at i:1369858 original size:54 final size:54
Alignment explanation
Indices: 1369776--1370136 Score: 539
Period size: 54 Copynumber: 6.7 Consensus size: 54
1369766 TAAGTATGCA
* *
1369776 AAGTTTATGAATGACCGTATCGACACTAAGTGTGTAACCCACGA-AATTCATAAT
1 AAGTTTATGAACGACCGTATCGACACTAAGTGTGCAACCCAC-ATAATTCATAAT
** *
1369830 AAGTTTATGAACGACCGTATCGGTACTAAGTGTGCAACCCACGA-AGTTCATAAT
1 AAGTTTATGAACGACCGTATCGACACTAAGTGTGCAACCCAC-ATAATTCATAAT
* * * *
1369884 AAGTTTATGAACGACCATATCTACACTAAGTGTGCAACCTACAGAATTCATAAT
1 AAGTTTATGAACGACCGTATCGACACTAAGTGTGCAACCCACATAATTCATAAT
* *
1369938 AAGTTTATGAAGGACCGTATCGACACTAAGTGTGCAACCCACATTATTCATAAT
1 AAGTTTATGAACGACCGTATCGACACTAAGTGTGCAACCCACATAATTCATAAT
*
1369992 AAGTTTATGAACGACCGTATCGGCACTAAGTGTGCAACCCACGA-AATTCATAAT
1 AAGTTTATGAACGACCGTATCGACACTAAGTGTGCAACCCAC-ATAATTCATAAT
*
1370046 AAGTTTATGAACGACCGTATCGACACTAACTGTGCAACCCACATAATTCATAAT
1 AAGTTTATGAACGACCGTATCGACACTAAGTGTGCAACCCACATAATTCATAAT
* *
1370100 AAGTTTATGAATGACCGTATCGGCACTAAGTGTGCAA
1 AAGTTTATGAACGACCGTATCGACACTAAGTGTGCAA
1370137 AGTTTATGAA
Statistics
Matches: 279, Mismatches: 25, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
53 2 0.01
54 276 0.99
55 1 0.00
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (54 bp):
AAGTTTATGAACGACCGTATCGACACTAAGTGTGCAACCCACATAATTCATAAT
Found at i:1369892 original size:144 final size:144
Alignment explanation
Indices: 1369632--1369899 Score: 466
Period size: 144 Copynumber: 1.9 Consensus size: 144
1369622 TAATCATAAT
1369632 AAGTTTATGAACGACCGTATAGACACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAA
1 AAGTTTATGAACGACCGTATAGACACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAA
*
1369697 CGACCGTATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAATGACCGTATAG
66 CGACCGTATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCGTATAG
1369762 GCACTAAGTATGCA
131 GCACTAAGTATGCA
* * * *
1369776 AAGTTTATGAATGACCGTATCGACACTAAGTGTGTAACCCACGAAATTCATAATAAGTTTATGAA
1 AAGTTTATGAACGACCGTATAGACACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAA
*
1369841 CGACCGTATCGGTACTAAGTGTGCAACCCAC-GAAGTTCATAATAAGTTTATGAACGACC
66 CGACCGTATCGGCACTAAGTGTGCAACCCACGGAA-TTCATAATAAGTTTATGAACGACC
1369900 ATATCTACAC
Statistics
Matches: 117, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
143 3 0.03
144 114 0.97
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (144 bp):
AAGTTTATGAACGACCGTATAGACACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAA
CGACCGTATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCGTATAG
GCACTAAGTATGCA
Found at i:1369975 original size:252 final size:253
Alignment explanation
Indices: 1369522--1370795 Score: 1314
Period size: 252 Copynumber: 5.0 Consensus size: 253
1369512 CGAAATTCAT
*
1369522 AATAAGTTTATGAACAACCGTATCGGA-ACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTA
1 AATAAGTTTATGAACGACCGTATC-GACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTA
* *
1369586 TGAACGACCGTATCGACACTAAGTGTGCAACCTACATAATCATAATAAGTTTATGAACGACCGTA
65 TGAACGACCGTATCGGCACTAAGTGTGCAACC-ACA-AGTCATAATAAGTTTATGAACGACCGTA
* * *
1369651 TAGACACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCGTATCGGCACTAAG
128 TCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCGACACTAAG
* * * *
1369716 TGTGCAACCCACGGAATTCATAATAAGTTTATGAATGACCGTATAGGCACTAA-GT-ATGC
193 TGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCGGCACTAAGGTAATTC
* *
1369775 -A-AAGTTTATGAATGACCGTATCGACACTAAGTGTGTAACCCACGAAATTCATAATAAGTTTAT
1 AATAAGTTTATGAACGACCGTATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTAT
* *
1369838 GAACGACCGTATCGGTACTAAGTGTGCAACCCACGAAGTTCATAATAAGTTTATGAACGACCATA
66 GAACGACCGTATCGGCACTAAGTGTGCAA-CCAC-AAG-TCATAATAAGTTTATGAACGACCGTA
* * *
1369903 TCTACACTAAGTGTGCAACCTAC-AGAATTCATAATAAGTTTATGAAGGACCGTATCGACACTAA
128 TCGACACTAAGTGTGCAACCCACGA-AATTCATAATAAGTTTATGAACGACCGTATCGACACTAA
**
1369967 GTGTGCAACCCACATTATTCATAATAAGTTTATGAACGACCGTATCGGCACTAAGTGTGCAACCC
192 GTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCGGCACTAAG-GT-------
1370032 ACGAAATTC
249 ----AATTC
*
1370041 ATAATAAGTTTATGAACGACCGTATCGACACTAACTGTGCAACCCAC-ATAATTCATAATAAGTT
1 --AATAAGTTTATGAACGACCGTATCGACACTAAGTGTGCAACCCACGA-AATTCATAATAAGTT
* *
1370105 TATGAATGACCGTATCGGCACTAAGTGT----------G-C---A-AAGTTTATGAATGACCGTA
63 TATGAACGACCGTATCGGCACTAAGTGTGCAACCACAAGTCATAATAAGTTTATGAACGACCGTA
* *
1370155 TC-AGCACTAAGTGTGTAACCCACGAAATTCATAATAAGTTTATGAATGACCGTATCGACACTAA
128 TCGA-CACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCGACACTAA
1370219 GTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCGGCACTAAGTGTGCAACCC
192 GTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCGGCACTAA--G-G------
1370284 ACATAATTC
248 ---TAATTC
* * ** *
1370293 ATAATAAGTTTATGAACGACCGTATCGGCACTAACTGTGCAACCCACGTGATTCATTATAAGTTT
1 --AATAAGTTTATGAACGACCGTATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTT
* * *
1370358 ATGAATGACCGTATCGGCACTAAGTGT----------G-C---A-AAGTTTATGAATGACCTTAT
64 ATGAACGACCGTATCGGCACTAAGTGTGCAACCACAAGTCATAATAAGTTTATGAACGACCGTAT
* *
1370408 CGACACTAAGTGTGTAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCGGCACTAAGT
129 CGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCGACACTAAGT
* * * **
1370473 GTGCAACCCA-TGAAGTTCATAATAAGTTTATGAACGACCATTTATGCACTAAGTGTGCAACCCA
194 GTGCAACCCACAGAA-TTCATAATAAGTTTATGAACGACCGTATCGGCACTAA--G-G-------
1370537 CATAATTC
248 --TAATTC
* *
1370545 ATAATAAGTTTATGAAGGACCGTATCGACACTAAGTGTGCAACCCACGTAATTCATAATAAGTTT
1 --AATAAGTTTATGAACGACCGTATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTT
* * * * *
1370610 ATGAACGATCGTATCAGCACTAAGCGTGCAACCCACGGAATTCATAATAAGTTTATGAACGAACG
64 ATGAACGACCGTATCGGCACTAAGTGTGCAA-CCAC--AAGTCATAATAAGTTTATGAACGACCG
1370675 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCGACACTA
126 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCGACACTA
* * * *
1370740 AATGTGTAACCCA-TGAAATTCATAATAAGTTTATGAACGACCGTATCGACACTAAG
191 AGTGTGCAACCCACAG-AATTCATAATAAGTTTATGAACGACCGTATCGGCACTAAG
1370796 TGTGCAACCC
Statistics
Matches: 898, Mismatches: 64, Indels: 103
0.84 0.06 0.10
Matches are distributed among these distances:
250 2 0.00
251 91 0.10
252 582 0.65
253 3 0.00
254 5 0.01
256 1 0.00
258 1 0.00
263 1 0.00
266 4 0.00
268 1 0.00
269 3 0.00
270 202 0.22
271 2 0.00
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.26
Consensus pattern (253 bp):
AATAAGTTTATGAACGACCGTATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTAT
GAACGACCGTATCGGCACTAAGTGTGCAACCACAAGTCATAATAAGTTTATGAACGACCGTATCG
ACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCGACACTAAGTGT
GCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCGGCACTAAGGTAATTC
Found at i:1370044 original size:162 final size:161
Alignment explanation
Indices: 1369776--1370836 Score: 1282
Period size: 162 Copynumber: 6.8 Consensus size: 161
1369766 TAAGTATGCA
*
1369776 AAGTTTATGAATGACCGTATCGACACTAAGTGTGTAACCCACGAAATTCATAATAAGTTTATGAA
1 AAGTTTATGAATGACCGTATCGACACTAAGTGTGCAACCCAC-AAATTCATAATAAGTTTATGAA
* * * *
1369841 CGACCGTATCGGTACTAAGTGTGCAACCCACGAAGTTCATAATAAGTTTATGAACGACCATATCT
65 CGACCGTATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCG
*
1369906 ACACTAAGTGTGCAACCTACAGAATTCATAAT
130 ACACTAAGTGTGCAACCCACAGAATTCATAAT
* *
1369938 AAGTTTATGAAGGACCGTATCGACACTAAGTGTGCAACCCACATTATTCATAATAAGTTTATGAA
1 AAGTTTATGAATGACCGTATCGACACTAAGTGTGCAACCCACA-AATTCATAATAAGTTTATGAA
1370003 CGACCGTATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCG
65 CGACCGTATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCG
* *
1370068 ACACTAACTGTGCAACCCACATAATTCATAAT
130 ACACTAAGTGTGCAACCCACAGAATTCATAAT
* *
1370100 AAGTTTATGAATGACCGTATCGGCACTAAGTGTG-------------C---A-AAGTTTATGAAT
1 AAGTTTATGAATGACCGTATCGACACTAAGTGTGCAACCCACAAATTCATAATAAGTTTATGAAC
* * *
1370148 GACCGTATCAGCACTAAGTGTGTAACCCACGAAATTCATAATAAGTTTATGAATGACCGTATCGA
66 GACCGTATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCGA
1370213 CACTAAGTGTGCAACCCACAGAATTCATAAT
131 CACTAAGTGTGCAACCCACAGAATTCATAAT
* *
1370244 AAGTTTATGAACGACCGTATCGGCACTAAGTGTGCAACCCACATAATTCATAATAAGTTTATGAA
1 AAGTTTATGAATGACCGTATCGACACTAAGTGTGCAACCCACA-AATTCATAATAAGTTTATGAA
* ** * *
1370309 CGACCGTATCGGCACTAACTGTGCAACCCACGTGATTCATTATAAGTTTATGAATGACCGTATCG
65 CGACCGTATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCG
* *
1370374 GCACTAAGTGTGC-A---A-AG--TTTATGAAT
130 ACACTAAGTGTGCAACCCACAGAATTCAT-AAT
* ** * * * * * *
1370400 GACCTTAT---CGA-C--A-CTA-AGT--GTGT-AACCCAC-GAAATTCATAATAAGTTTATGAA
1 AAGTTTATGAATGACCGTATCGACACTAAGTGTGCAACC-CACAAATTCATAATAAGTTTATGAA
* * *
1370453 CGACCGTATCGGCACTAAGTGTGCAACCCATGAAGTTCATAATAAGTTTATGAACGACCATTTAT
65 CGACCGTATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACC--GTAT
*
1370518 -G-CACTAAGTGTGCAACCCACATAATTCATAAT
128 CGACACTAAGTGTGCAACCCACAGAATTCATAAT
* *
1370550 AAGTTTATGAAGGACCGTATCGACACTAAGTGTGCAACCCACGTAATTCATAATAAGTTTATGAA
1 AAGTTTATGAATGACCGTATCGACACTAAGTGTGCAACCCAC-AAATTCATAATAAGTTTATGAA
* * * * *
1370615 CGATCGTATCAGCACTAAGCGTGCAACCCACGGAATTCATAATAAGTTTATGAACGAACGTATCG
65 CGACCGTATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCG
1370680 ACACTAAGTGTGCAACCCAC-GAAATTCATAAT
130 ACACTAAGTGTGCAACCCACAG-AATTCATAAT
* * * *
1370712 AAGTTTATGAACGACCGTATCGACACTAAATGTGTAACCCATGAAATTCATAATAAGTTTATGAA
1 AAGTTTATGAATGACCGTATCGACACTAAGTGTGCAACCCA-CAAATTCATAATAAGTTTATGAA
* * * * *
1370777 CGACCGTATCGACACTAAGTGTGCAACCCACGGAATTCATAATGAGCTTATGAATGACCG
65 CGACCGTATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
1370837 ATCTACGTTC
Statistics
Matches: 773, Mismatches: 79, Indels: 94
0.82 0.08 0.10
Matches are distributed among these distances:
144 220 0.28
145 7 0.01
146 8 0.01
148 4 0.01
149 2 0.00
150 9 0.01
151 4 0.01
152 1 0.00
153 5 0.01
154 1 0.00
155 4 0.01
156 9 0.01
157 4 0.01
158 4 0.01
160 8 0.01
161 7 0.01
162 476 0.62
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (161 bp):
AAGTTTATGAATGACCGTATCGACACTAAGTGTGCAACCCACAAATTCATAATAAGTTTATGAAC
GACCGTATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCGA
CACTAAGTGTGCAACCCACAGAATTCATAAT
Found at i:1370147 original size:36 final size:36
Alignment explanation
Indices: 1370100--1370169 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
1370090 AATTCATAAT
*
1370100 AAGTTTATGAATGACCGTATCGGCACTAAGTGTGCA
1 AAGTTTATGAATGACCGTATCAGCACTAAGTGTGCA
1370136 AAGTTTATGAATGACCGTATCAGCACTAAGTGTG
1 AAGTTTATGAATGACCGTATCAGCACTAAGTGTG
1370170 TAACCCACGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (36 bp):
AAGTTTATGAATGACCGTATCAGCACTAAGTGTGCA
Found at i:1370199 original size:90 final size:90
Alignment explanation
Indices: 1370046--1370226 Score: 294
Period size: 90 Copynumber: 2.0 Consensus size: 90
1370036 AATTCATAAT
1370046 AAGTTTATGAACGACCGTATCGACACTAACTGTGCAACCCACATAATTCATAATAAGTTTATGAA
1 AAGTTTATGAACGACCGTATCGACACTAACTGTGCAACCCACATAATTCATAATAAGTTTATGAA
*
1370111 TGACCGTATCGGCACTAAGTGTGCA
66 TGACCGTATCGACACTAAGTGTGCA
* * *
1370136 AAGTTTATGAATGACCGTATC-AGCACTAAGTGTGTAACCCACGA-AATTCATAATAAGTTTATG
1 AAGTTTATGAACGACCGTATCGA-CACTAACTGTGCAACCCAC-ATAATTCATAATAAGTTTATG
1370199 AATGACCGTATCGACACTAAGTGTGCA
64 AATGACCGTATCGACACTAAGTGTGCA
1370226 A
1 A
1370227 CCCACAGAAT
Statistics
Matches: 85, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
89 1 0.01
90 83 0.98
91 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (90 bp):
AAGTTTATGAACGACCGTATCGACACTAACTGTGCAACCCACATAATTCATAATAAGTTTATGAA
TGACCGTATCGACACTAAGTGTGCA
Found at i:1370218 original size:54 final size:54
Alignment explanation
Indices: 1370136--1370388 Score: 393
Period size: 54 Copynumber: 4.7 Consensus size: 54
1370126 TAAGTGTGCA
* *
1370136 AAGTTTATGAATGACCGTATCAGCACTAAGTGTGTAACCCAC-GAAATTCATAAT
1 AAGTTTATGAATGACCGTATCGGCACTAAGTGTGCAACCCACAG-AATTCATAAT
*
1370190 AAGTTTATGAATGACCGTATCGACACTAAGTGTGCAACCCACAGAATTCATAAT
1 AAGTTTATGAATGACCGTATCGGCACTAAGTGTGCAACCCACAGAATTCATAAT
* *
1370244 AAGTTTATGAACGACCGTATCGGCACTAAGTGTGCAACCCACATAATTCATAAT
1 AAGTTTATGAATGACCGTATCGGCACTAAGTGTGCAACCCACAGAATTCATAAT
* * * *
1370298 AAGTTTATGAACGACCGTATCGGCACTAACTGTGCAACCCAC-GTGATTCATTAT
1 AAGTTTATGAATGACCGTATCGGCACTAAGTGTGCAACCCACAG-AATTCATAAT
1370352 AAGTTTATGAATGACCGTATCGGCACTAAGTGTGCAA
1 AAGTTTATGAATGACCGTATCGGCACTAAGTGTGCAA
1370389 AGTTTATGAA
Statistics
Matches: 185, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
54 184 0.99
55 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (54 bp):
AAGTTTATGAATGACCGTATCGGCACTAAGTGTGCAACCCACAGAATTCATAAT
Found at i:1370252 original size:144 final size:144
Alignment explanation
Indices: 1369992--1370280 Score: 515
Period size: 144 Copynumber: 2.0 Consensus size: 144
1369982 TATTCATAAT
*
1369992 AAGTTTATGAACGACCGTATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAA
1 AAGTTTATGAACGACCGTATCAGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAA
* *
1370057 CGACCGTATCGACACTAACTGTGCAACCCACATAATTCATAATAAGTTTATGAATGACCGTATCG
66 CGACCGTATCGACACTAACTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCG
1370122 GCACTAAGTGTGCA
131 GCACTAAGTGTGCA
* *
1370136 AAGTTTATGAATGACCGTATCAGCACTAAGTGTGTAACCCACGAAATTCATAATAAGTTTATGAA
1 AAGTTTATGAACGACCGTATCAGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAA
* *
1370201 TGACCGTATCGACACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCG
66 CGACCGTATCGACACTAACTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCG
1370266 GCACTAAGTGTGCA
131 GCACTAAGTGTGCA
1370280 A
1 A
1370281 CCCACATAAT
Statistics
Matches: 138, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
144 138 1.00
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.26
Consensus pattern (144 bp):
AAGTTTATGAACGACCGTATCAGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAA
CGACCGTATCGACACTAACTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCG
GCACTAAGTGTGCA
Found at i:1370399 original size:36 final size:36
Alignment explanation
Indices: 1370352--1370421 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
1370342 GATTCATTAT
*
1370352 AAGTTTATGAATGACCGTATCGGCACTAAGTGTGCA
1 AAGTTTATGAATGACCGTATCGACACTAAGTGTGCA
*
1370388 AAGTTTATGAATGACCTTATCGACACTAAGTGTG
1 AAGTTTATGAATGACCGTATCGACACTAAGTGTG
1370422 TAACCCACGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (36 bp):
AAGTTTATGAATGACCGTATCGACACTAAGTGTGCA
Found at i:1370451 original size:90 final size:90
Alignment explanation
Indices: 1370298--1370478 Score: 281
Period size: 90 Copynumber: 2.0 Consensus size: 90
1370288 AATTCATAAT
* ** *
1370298 AAGTTTATGAACGACCGTATCGGCACTAACTGTGCAACCCACGTGATTCATTATAAGTTTATGAA
1 AAGTTTATGAACGACCGTATCGACACTAACTGTGCAACCCACGAAATTCATAATAAGTTTATGAA
*
1370363 TGACCGTATCGGCACTAAGTGTGCA
66 CGACCGTATCGGCACTAAGTGTGCA
* * * *
1370388 AAGTTTATGAATGACCTTATCGACACTAAGTGTGTAACCCACGAAATTCATAATAAGTTTATGAA
1 AAGTTTATGAACGACCGTATCGACACTAACTGTGCAACCCACGAAATTCATAATAAGTTTATGAA
1370453 CGACCGTATCGGCACTAAGTGTGCA
66 CGACCGTATCGGCACTAAGTGTGCA
1370478 A
1 A
1370479 CCCATGAAGT
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
90 82 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (90 bp):
AAGTTTATGAACGACCGTATCGACACTAACTGTGCAACCCACGAAATTCATAATAAGTTTATGAA
CGACCGTATCGGCACTAAGTGTGCA
Found at i:1370470 original size:54 final size:54
Alignment explanation
Indices: 1370388--1370836 Score: 654
Period size: 54 Copynumber: 8.3 Consensus size: 54
1370378 TAAGTGTGCA
* * *
1370388 AAGTTTATGAATGACCTTATCGACACTAAGTGTGTAACCCACGAAATTCATAAT
1 AAGTTTATGAACGACCGTATCGACACTAAGTGTGCAACCCACGAAATTCATAAT
* * *
1370442 AAGTTTATGAACGACCGTATCGGCACTAAGTGTGCAACCCATGAAGTTCATAAT
1 AAGTTTATGAACGACCGTATCGACACTAAGTGTGCAACCCACGAAATTCATAAT
*
1370496 AAGTTTATGAACGACCATTTAT-G-CACTAAGTGTGCAACCCAC-ATAATTCATAAT
1 AAGTTTATGAACGACC--GTATCGACACTAAGTGTGCAACCCACGA-AATTCATAAT
* *
1370550 AAGTTTATGAAGGACCGTATCGACACTAAGTGTGCAACCCACGTAATTCATAAT
1 AAGTTTATGAACGACCGTATCGACACTAAGTGTGCAACCCACGAAATTCATAAT
* * *
1370604 AAGTTTATGAACGATCGTATC-AGCACTAAGCGTGCAACCCACGGAATTCATAAT
1 AAGTTTATGAACGACCGTATCGA-CACTAAGTGTGCAACCCACGAAATTCATAAT
*
1370658 AAGTTTATGAACGAACGTATCGACACTAAGTGTGCAACCCACGAAATTCATAAT
1 AAGTTTATGAACGACCGTATCGACACTAAGTGTGCAACCCACGAAATTCATAAT
* * *
1370712 AAGTTTATGAACGACCGTATCGACACTAAATGTGTAACCCATGAAATTCATAAT
1 AAGTTTATGAACGACCGTATCGACACTAAGTGTGCAACCCACGAAATTCATAAT
*
1370766 AAGTTTATGAACGACCGTATCGACACTAAGTGTGCAACCCACGGAATTCATAAT
1 AAGTTTATGAACGACCGTATCGACACTAAGTGTGCAACCCACGAAATTCATAAT
* * *
1370820 GAGCTTATGAATGACCG
1 AAGTTTATGAACGACCG
1370837 ATCTACGTTC
Statistics
Matches: 357, Mismatches: 30, Indels: 16
0.89 0.07 0.04
Matches are distributed among these distances:
52 3 0.01
53 3 0.01
54 346 0.97
55 2 0.01
56 3 0.01
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.26
Consensus pattern (54 bp):
AAGTTTATGAACGACCGTATCGACACTAAGTGTGCAACCCACGAAATTCATAAT
Found at i:1370504 original size:144 final size:143
Alignment explanation
Indices: 1370244--1370532 Score: 429
Period size: 144 Copynumber: 2.0 Consensus size: 143
1370234 AATTCATAAT
*
1370244 AAGTTTATGAACGACCGTATCGGCACTAAGTGTGCAACCCACATAATTCATAATAAGTTTATGAA
1 AAGTTTATGAACGACCGTATCGACACTAAGTGTGCAACCCACATAATTCATAATAAGTTTATGAA
* * * *
1370309 CGACCGTATCGGCACTAACTGTGCAACCCACGTGATTCATTATAAGTTTATGAATGACCGTATCG
66 CGACCGTATCGGCACTAACTGTGCAACCCAC-TGATTCATAATAAGTTTATGAACGACCATATAG
1370374 GCACTAAGTGTGCA
130 GCACTAAGTGTGCA
* * *
1370388 AAGTTTATGAATGACCTTATCGACACTAAGTGTGTAACCCACGA-AATTCATAATAAGTTTATGA
1 AAGTTTATGAACGACCGTATCGACACTAAGTGTGCAACCCAC-ATAATTCATAATAAGTTTATGA
* *
1370452 ACGACCGTATCGGCACTAAGTGTGCAACCCA-TGAAGTTCATAATAAGTTTATGAACGACCATTT
65 ACGACCGTATCGGCACTAACTGTGCAACCCACTG-A-TTCATAATAAGTTTATGAACGACCATAT
*
1370516 ATGCACTAAGTGTGCA
128 AGGCACTAAGTGTGCA
1370532 A
1 A
1370533 CCCACATAAT
Statistics
Matches: 131, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
142 2 0.02
143 1 0.01
144 127 0.97
145 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.28
Consensus pattern (143 bp):
AAGTTTATGAACGACCGTATCGACACTAAGTGTGCAACCCACATAATTCATAATAAGTTTATGAA
CGACCGTATCGGCACTAACTGTGCAACCCACTGATTCATAATAAGTTTATGAACGACCATATAGG
CACTAAGTGTGCA
Found at i:1371423 original size:23 final size:23
Alignment explanation
Indices: 1371364--1371426 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 23
1371354 GTTTGGGTGG
* * *
1371364 CTTGG-TTAGGGCCAGTTCGGGT
1 CTTGGCTTGGGGCCGGTTCAGGT
* *
1371386 CTTAGCTTGAGGCCGGTTCAGGT
1 CTTGGCTTGGGGCCGGTTCAGGT
1371409 CTTGGCTTGGGGCCGGTT
1 CTTGGCTTGGGGCCGGTT
1371427 TGAGTATGAA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
22 4 0.12
23 29 0.88
ACGTcount: A:0.08, C:0.21, G:0.40, T:0.32
Consensus pattern (23 bp):
CTTGGCTTGGGGCCGGTTCAGGT
Found at i:1375307 original size:25 final size:21
Alignment explanation
Indices: 1375257--1375332 Score: 109
Period size: 21 Copynumber: 3.6 Consensus size: 21
1375247 GCTTGACTTG
1375257 GTAGCTAACTAGGTAGGTGGT
1 GTAGCTAACTAGGTAGGTGGT
1375278 GTAGCTAACTAGGTAGGTGGT
1 GTAGCTAACTAGGTAGGTGGT
* *
1375299 GTAGCTAGCTAGGTAAGTGAG-
1 GTAGCTAACTAGGTAGGTG-GT
*
1375320 GTAGCTAGCTAGG
1 GTAGCTAACTAGG
1375333 CACCTAGTGT
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
21 51 0.98
22 1 0.02
ACGTcount: A:0.25, C:0.11, G:0.38, T:0.26
Consensus pattern (21 bp):
GTAGCTAACTAGGTAGGTGGT
Found at i:1377877 original size:22 final size:22
Alignment explanation
Indices: 1377850--1377916 Score: 91
Period size: 22 Copynumber: 3.0 Consensus size: 22
1377840 GGCATATGAA
1377850 ATTTGTCCCAAAGGACCTATGT
1 ATTTGTCCCAAAGGACCTATGT
*
1377872 ATTTGTCCCAATA-GACCTCTGT
1 ATTTGTCCCAA-AGGACCTATGT
* *
1377894 ATATGTCCCGAAGGACCTATGT
1 ATTTGTCCCAAAGGACCTATGT
1377916 A
1 A
1377917 ACCCTCGACT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
21 1 0.03
22 37 0.95
23 1 0.03
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (22 bp):
ATTTGTCCCAAAGGACCTATGT
Found at i:1378469 original size:19 final size:19
Alignment explanation
Indices: 1378445--1378495 Score: 102
Period size: 19 Copynumber: 2.7 Consensus size: 19
1378435 CCTTAACCGG
1378445 TGTATCGGTACACCGCCTA
1 TGTATCGGTACACCGCCTA
1378464 TGTATCGGTACACCGCCTA
1 TGTATCGGTACACCGCCTA
1378483 TGTATCGGTACAC
1 TGTATCGGTACAC
1378496 AAGTTACATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (19 bp):
TGTATCGGTACACCGCCTA
Found at i:1384318 original size:12 final size:12
Alignment explanation
Indices: 1384303--1384344 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
1384293 ACATATAATC
1384303 ATCATTATCACT
1 ATCATTATCACT
*
1384315 ATCATTACCAAC-
1 ATCATTATC-ACT
*
1384327 ATCATTATCATT
1 ATCATTATCACT
1384339 ATCATT
1 ATCATT
1384345 CACTGTTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
11 1 0.04
12 22 0.88
13 2 0.08
ACGTcount: A:0.36, C:0.24, G:0.00, T:0.40
Consensus pattern (12 bp):
ATCATTATCACT
Found at i:1384508 original size:23 final size:23
Alignment explanation
Indices: 1384482--1384564 Score: 67
Period size: 23 Copynumber: 3.6 Consensus size: 23
1384472 CACATATAAA
1384482 TTTCCCGAAGGACCATATAGTAT
1 TTTCCCGAAGGACCATATAGTAT
** *** * *
1384505 TTTCAGGAAGGACCGCGTAGAAA
1 TTTCCCGAAGGACCATATAGTAT
* *
1384528 TGTCCCGAAGGACCATATAATAT
1 TTTCCCGAAGGACCATATAGTAT
* *
1384551 TCTCCTGAAGGACC
1 TTTCCCGAAGGACC
1384565 GCGTAGAACC
Statistics
Matches: 42, Mismatches: 18, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (23 bp):
TTTCCCGAAGGACCATATAGTAT
Found at i:1384561 original size:46 final size:46
Alignment explanation
Indices: 1384479--1384572 Score: 143
Period size: 46 Copynumber: 2.0 Consensus size: 46
1384469 TGCCACATAT
* * *
1384479 AAATTTCCCGAAGGACCATATAGTATTTTCAGGAAGGACCGCGTAG
1 AAATGTCCCGAAGGACCATATAATATTCTCAGGAAGGACCGCGTAG
**
1384525 AAATGTCCCGAAGGACCATATAATATTCTCCTGAAGGACCGCGTAG
1 AAATGTCCCGAAGGACCATATAATATTCTCAGGAAGGACCGCGTAG
1384571 AA
1 AA
1384573 CCCTCGACTC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.22
Consensus pattern (46 bp):
AAATGTCCCGAAGGACCATATAATATTCTCAGGAAGGACCGCGTAG
Found at i:1384740 original size:15 final size:15
Alignment explanation
Indices: 1384722--1384834 Score: 90
Period size: 15 Copynumber: 7.5 Consensus size: 15
1384712 TTTCATATTT
1384722 TCACATAGTTCAATA
1 TCACATAGTTCAATA
*
1384737 TCACATAGTT-TATA
1 TCACATAGTTCAATA
*
1384751 TCACAT-GTTCACATGT
1 TCACATAGTTCA-AT-A
* *
1384767 TCACATAGTTCGACA
1 TCACATAGTTCAATA
*
1384782 TCACATAGTT-TATA
1 TCACATAGTTCAATA
*
1384796 TCACAT-GTTCATATGT
1 TCACATAGTTCA-AT-A
* *
1384812 TCACGTAGTTCGATA
1 TCACATAGTTCAATA
1384827 TCACATAG
1 TCACATAG
1384835 CTTATATAAT
Statistics
Matches: 76, Mismatches: 14, Indels: 16
0.72 0.13 0.15
Matches are distributed among these distances:
13 6 0.08
14 17 0.22
15 31 0.41
16 14 0.18
17 8 0.11
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (15 bp):
TCACATAGTTCAATA
Found at i:1384770 original size:45 final size:45
Alignment explanation
Indices: 1384721--1384841 Score: 197
Period size: 45 Copynumber: 2.7 Consensus size: 45
1384711 TTTTCATATT
*
1384721 TTCACATAGTTCAATATCACATAGTTTATATCACATGTTCACATG
1 TTCACATAGTTCGATATCACATAGTTTATATCACATGTTCACATG
* *
1384766 TTCACATAGTTCGACATCACATAGTTTATATCACATGTTCATATG
1 TTCACATAGTTCGATATCACATAGTTTATATCACATGTTCACATG
* *
1384811 TTCACGTAGTTCGATATCACATAGCTTATAT
1 TTCACATAGTTCGATATCACATAGTTTATAT
1384842 AATTTTCACA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 70 1.00
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (45 bp):
TTCACATAGTTCGATATCACATAGTTTATATCACATGTTCACATG
Found at i:1384854 original size:45 final size:47
Alignment explanation
Indices: 1384715--1384864 Score: 186
Period size: 45 Copynumber: 3.3 Consensus size: 47
1384705 TTCATATTTT
* *
1384715 CATATTTTCACATAGTTCAATATCACATAGTTTATATCACATGTTCA
1 CATATGTTCACATAGTTCGATATCACATAGTTTATATCACATGTTCA
*
1384762 C--ATGTTCACATAGTTCGACATCACATAGTTTATATCACATGTT--
1 CATATGTTCACATAGTTCGATATCACATAGTTTATATCACATGTTCA
* * *
1384805 CATATGTTCACGTAGTTCGATATCACATAGCTTATAT-A-ATTTTCA
1 CATATGTTCACATAGTTCGATATCACATAGTTTATATCACATGTTCA
* *
1384850 CATATATCCACATAG
1 CATATGTTCACATAG
1384865 ATCATGTAAC
Statistics
Matches: 89, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
43 5 0.06
44 1 0.01
45 82 0.92
47 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.38
Consensus pattern (47 bp):
CATATGTTCACATAGTTCGATATCACATAGTTTATATCACATGTTCA
Found at i:1389343 original size:22 final size:22
Alignment explanation
Indices: 1389313--1389392 Score: 133
Period size: 22 Copynumber: 3.6 Consensus size: 22
1389303 ACTGAAAGGG
*
1389313 AGTATCGATACCATAGTATAGA
1 AGTACCGATACCATAGTATAGA
1389335 AGTACCGATACCATAGTATAGA
1 AGTACCGATACCATAGTATAGA
1389357 AGTACCGATACCATAGTATAGA
1 AGTACCGATACCATAGTATAGA
* *
1389379 AGTATCAATACCAT
1 AGTACCGATACCAT
1389393 GGTAGGGGTA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 55 1.00
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.25
Consensus pattern (22 bp):
AGTACCGATACCATAGTATAGA
Found at i:1389961 original size:12 final size:12
Alignment explanation
Indices: 1389940--1389969 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1389930 ATAATATCTC
*
1389940 ATTATCCTTATT
1 ATTATTCTTATT
1389952 ATTATTCTTATT
1 ATTATTCTTATT
1389964 ATTATT
1 ATTATT
1389970 AGCATTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (12 bp):
ATTATTCTTATT
Found at i:1390801 original size:17 final size:18
Alignment explanation
Indices: 1390774--1390819 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
1390764 CACAACAATC
1390774 ATATA-ACATATAC-CAT
1 ATATACACATATACTCAT
1390790 ATATACACATATACTCAT
1 ATATACACATATACTCAT
*
1390808 ATCAAACACATA
1 AT-ATACACATA
1390820 CTTATAATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 5 0.19
17 8 0.31
18 5 0.19
19 8 0.31
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (18 bp):
ATATACACATATACTCAT
Found at i:1392491 original size:44 final size:44
Alignment explanation
Indices: 1392428--1392824 Score: 560
Period size: 44 Copynumber: 9.0 Consensus size: 44
1392418 CTGCTCTAAA
* * * * *
1392428 ATAAATAAAAATGCATAACGATGCATTATTGGCATAAAAGTGTC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
*
1392472 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAAGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* * ***
1392516 ATAAATGAAAATGCATAACGGTGCATTATTGGTAGAAAGATATG
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* * *
1392560 ATAAATAAAAATGCATAACGATGTATTATTGGCAGAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
** *
1392604 ATAAATGAAAATGCATAACGGTGCATTATTGTTAGAAAGGTTCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* * * *
1392648 ATAAATGAAAATGCATAACGATGCATTTTTGACAGGAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
**
1392692 ATAAATGAAAATGCATAACGGTGCATTATTAACAGAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
*
1392736 ATAAATGAAAATGCATAACGGTGCATTATTGGCATAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* *
1392780 ATAAATGAAAATGCATAACAGTACATTATTGGCAGAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
1392824 A
1 A
1392825 CTCATGGTAT
Statistics
Matches: 313, Mismatches: 40, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 313 1.00
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.25
Consensus pattern (44 bp):
ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
Found at i:1407255 original size:24 final size:24
Alignment explanation
Indices: 1407196--1407256 Score: 97
Period size: 24 Copynumber: 2.5 Consensus size: 24
1407186 ACAACTCTTG
*
1407196 GAACTTCAAGTCATGCATCCTTTT
1 GAACTTCAAGTGATGCATCCTTTT
1407220 GAACTTCAAGTGATGCAT-CTTTCT
1 GAACTTCAAGTGATGCATCCTTT-T
1407244 GAACTTCAAGTGA
1 GAACTTCAAGTGA
1407257 CATATCTTGT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
23 4 0.11
24 31 0.89
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.34
Consensus pattern (24 bp):
GAACTTCAAGTGATGCATCCTTTT
Found at i:1407263 original size:24 final size:23
Alignment explanation
Indices: 1407196--1407264 Score: 66
Period size: 24 Copynumber: 2.9 Consensus size: 23
1407186 ACAACTCTTG
* **
1407196 GAACTTCAAGTCATGCATCCTTTT
1 GAACTTCAAGTGACACAT-CTTTT
**
1407220 GAACTTCAAGTGATGCATCTTTCT
1 GAACTTCAAGTGACACATCTTT-T
*
1407244 GAACTTCAAGTGACATATCTT
1 GAACTTCAAGTGACACATCTT
1407265 GTGTGATACC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.10
24 36 0.90
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (23 bp):
GAACTTCAAGTGACACATCTTTT
Found at i:1409683 original size:21 final size:21
Alignment explanation
Indices: 1409656--1409732 Score: 93
Period size: 21 Copynumber: 3.7 Consensus size: 21
1409646 GGCTTGACTT
*
1409656 GGTAGCTAACTAGGTAGATGA
1 GGTAGCTAGCTAGGTAGATGA
*
1409677 TGTAGCTAGCTAGGTA-AGTGA
1 GGTAGCTAGCTAGGTAGA-TGA
* * *
1409698 GGTAGCTTGCTAGGTAGCTAA
1 GGTAGCTAGCTAGGTAGATGA
1409719 GGTAGCTAGCTAGG
1 GGTAGCTAGCTAGG
1409733 CACCTAGTGT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
20 1 0.02
21 46 0.98
ACGTcount: A:0.27, C:0.12, G:0.35, T:0.26
Consensus pattern (21 bp):
GGTAGCTAGCTAGGTAGATGA
Found at i:1420259 original size:34 final size:34
Alignment explanation
Indices: 1420210--1420320 Score: 132
Period size: 34 Copynumber: 3.3 Consensus size: 34
1420200 TCATGATCAA
* *
1420210 CCACACATAAGGACAGAGAGATAACTCCACTCCT
1 CCACATATAAGGACAGAGAGATAACTCCACTCGT
* * *
1420244 CCATATATAAGGACAGCGAGATAACTCCAATCGT
1 CCACATATAAGGACAGAGAGATAACTCCACTCGT
* * * * *
1420278 CCGCACATAAGGATAGTGAGATAACCCCACTCGT
1 CCACATATAAGGACAGAGAGATAACTCCACTCGT
1420312 CCACATATA
1 CCACATATA
1420321 TTCACACATA
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 63 1.00
ACGTcount: A:0.37, C:0.29, G:0.16, T:0.18
Consensus pattern (34 bp):
CCACATATAAGGACAGAGAGATAACTCCACTCGT
Found at i:1426338 original size:24 final size:24
Alignment explanation
Indices: 1426311--1426374 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 24
1426301 AATTCATGTT
*
1426311 ATATTTATCATATGATAAAGCATG
1 ATATTTATCATATGATAAAACATG
* * * *
1426335 ATATTTGTCACATGATAAAATATT
1 ATATTTATCATATGATAAAACATG
1426359 ATATTTATCATATGAT
1 ATATTTATCATATGAT
1426375 GAAATAGGAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.42
Consensus pattern (24 bp):
ATATTTATCATATGATAAAACATG
Found at i:1426379 original size:24 final size:23
Alignment explanation
Indices: 1426309--1426380 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 23
1426299 TTAATTCATG
*
1426309 TTATATTTATCATATGATAAAGCA
1 TTATATTTATCATATGATAAA-TA
* * *
1426333 TGATATTTGTCACATGATAAAATA
1 TTATATTTATCATATGAT-AAATA
1426357 TTATATTTATCATATGATGAAATA
1 TTATATTTATCATATGAT-AAATA
1426381 GGATGAAGTA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
24 36 0.92
25 3 0.08
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.42
Consensus pattern (23 bp):
TTATATTTATCATATGATAAATA
Found at i:1426948 original size:26 final size:26
Alignment explanation
Indices: 1426919--1426973 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
1426909 ACCCATCGAT
*
1426919 ATCAAATACTTAAGTATGCAGACGAC
1 ATCAAATACTTAAGTACGCAGACGAC
* *
1426945 ATCAAATTCTTAAGTACGCGGACGAC
1 ATCAAATACTTAAGTACGCAGACGAC
1426971 ATC
1 ATC
1426974 GTAGATTACA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (26 bp):
ATCAAATACTTAAGTACGCAGACGAC
Found at i:1427606 original size:21 final size:22
Alignment explanation
Indices: 1427576--1427616 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
1427566 CATAGTGAGG
*
1427576 CATATAAACATATAATATAAAT
1 CATATAAACATATAACATAAAT
*
1427598 CATA-AAACATCTAACATAA
1 CATATAAACATATAACATAA
1427617 TAGAATACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.27
Consensus pattern (22 bp):
CATATAAACATATAACATAAAT
Found at i:1428050 original size:30 final size:30
Alignment explanation
Indices: 1427967--1428038 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
1427957 CTCGAATGAC
*
1427967 CTATCGAGAGGTCATAAAGAACCTCGGCAA
1 CTATCCAGAGGTCATAAAGAACCTCGGCAA
*
1427997 CTATCCAGAGGTCATAAAAAACCTCGGCAA
1 CTATCCAGAGGTCATAAAGAACCTCGGCAA
* *
1428027 CTGTCCATAGGT
1 CTATCCAGAGGT
1428039 TCTGAAGAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.19
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGAACCTCGGCAA
Found at i:1428060 original size:31 final size:31
Alignment explanation
Indices: 1428025--1428118 Score: 109
Period size: 31 Copynumber: 3.0 Consensus size: 31
1428015 AAACCTCGGC
* *
1428025 AACTGTCCATAGGTTCTGAAGAACCTAGGTA
1 AACTGTCCATATGTTCTGAAGAACATAGGTA
* *
1428056 AACTGCCCATATGTTCCT-TAGAACATAGGTA
1 AACTGTCCATATGTT-CTGAAGAACATAGGTA
* * *
1428087 AATTGTCCATATGTCCCGAAGAACATAGGTA
1 AACTGTCCATATGTTCTGAAGAACATAGGTA
1428118 A
1 A
1428119 CCCTCGACTC
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
30 1 0.02
31 49 0.94
32 2 0.04
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (31 bp):
AACTGTCCATATGTTCTGAAGAACATAGGTA
Found at i:1429120 original size:23 final size:23
Alignment explanation
Indices: 1429101--1429145 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
1429091 CCAAATTTTT
1429101 CATGTTATCCAAACTTAATTCTC
1 CATGTTATCCAAACTTAATTCTC
1429124 CATGTTATCCAAACTTAATTCT
1 CATGTTATCCAAACTTAATTCT
1429146 AACACTTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.31, C:0.24, G:0.04, T:0.40
Consensus pattern (23 bp):
CATGTTATCCAAACTTAATTCTC
Found at i:1429417 original size:14 final size:14
Alignment explanation
Indices: 1429398--1429425 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1429388 CTCTTACGGG
1429398 AGGAAGAAGAAGAA
1 AGGAAGAAGAAGAA
1429412 AGGAAGAAGAAGAA
1 AGGAAGAAGAAGAA
1429426 GAAATATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (14 bp):
AGGAAGAAGAAGAA
Found at i:1432950 original size:22 final size:23
Alignment explanation
Indices: 1432908--1432953 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
1432898 AAAATATGGT
1432908 ATGAACAGTACCGTGTGAACAGTA
1 ATGAACAGTACCG-GTGAACAGTA
*
1432932 ATGACCAGTACC-GTGAACAGTA
1 ATGAACAGTACCGGTGAACAGTA
1432954 CCCCAAATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.48
24 11 0.52
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.20
Consensus pattern (23 bp):
ATGAACAGTACCGGTGAACAGTA
Found at i:1433793 original size:30 final size:30
Alignment explanation
Indices: 1433731--1433794 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
1433721 CCCGAAGGAC
**
1433731 CTATCCAGAGGTCATAAAGAACCTCGGCAA
1 CTATCCAGAGGTCATAAAGAACCTCAACAA
*
1433761 CTATCCAGAGGTCATAAAGAACCTCAATAA
1 CTATCCAGAGGTCATAAAGAACCTCAACAA
1433791 CTAT
1 CTAT
1433795 GCATAGGTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.20
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGAACCTCAACAA
Found at i:1433849 original size:31 final size:31
Alignment explanation
Indices: 1433806--1433882 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
1433796 CATAGGTTCT
* *
1433806 GAAGAACCTAGGTAAACTGTCCATATGTTCC
1 GAAGAACATAGGTAAACTGTCCATATGTCCC
** *
1433837 TTAGAACATAGGTAAATTGTCCATATGTCCC
1 GAAGAACATAGGTAAACTGTCCATATGTCCC
1433868 GAAGAACATAGGTAA
1 GAAGAACATAGGTAA
1433883 CCCTCGACTC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.26
Consensus pattern (31 bp):
GAAGAACATAGGTAAACTGTCCATATGTCCC
Found at i:1435134 original size:14 final size:14
Alignment explanation
Indices: 1435115--1435142 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1435105 CTCTTACGGG
1435115 AGGAAGAAGAAGAA
1 AGGAAGAAGAAGAA
1435129 AGGAAGAAGAAGAA
1 AGGAAGAAGAAGAA
1435143 GAAATATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (14 bp):
AGGAAGAAGAAGAA
Found at i:1437270 original size:31 final size:31
Alignment explanation
Indices: 1437225--1437314 Score: 108
Period size: 31 Copynumber: 2.9 Consensus size: 31
1437215 ACTCATACTC
* *
1437225 CTATGCATTATCTGAATGTAAACTTGACACA
1 CTATACATTATCTGAATGTAAACCTGACACA
* * *
1437256 CTATACCTTATCTGAATGTAAACCAGACATA
1 CTATACATTATCTGAATGTAAACCTGACACA
* * *
1437287 TTGTGCATTATCTGAATGTAAACCTGAC
1 CTATACATTATCTGAATGTAAACCTGAC
1437315 TAGTAACTGG
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 49 1.00
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.32
Consensus pattern (31 bp):
CTATACATTATCTGAATGTAAACCTGACACA
Found at i:1441382 original size:31 final size:31
Alignment explanation
Indices: 1441320--1441398 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
1441310 TGTGCATTAC
*
1441320 CTGAATGCAAACCTGACATATTTTACCTTAT
1 CTGAATGCAAACCTGACATATTTGACCTTAT
* * *
1441351 CTGGATGCAAACCTGATATATTGTGA-TTTAT
1 CTGAATGCAAACCTGACATATT-TGACCTTAT
* *
1441382 CTGAATGTAAACATGAC
1 CTGAATGCAAACCTGAC
1441399 TAACATATGG
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 37 0.95
32 2 0.05
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (31 bp):
CTGAATGCAAACCTGACATATTTGACCTTAT
Found at i:1443579 original size:3 final size:3
Alignment explanation
Indices: 1443573--1443603 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
1443563 CACCACCATT
1443573 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
1443604 ATTGGACTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:1447257 original size:54 final size:54
Alignment explanation
Indices: 1447197--1447399 Score: 279
Period size: 54 Copynumber: 3.8 Consensus size: 54
1447187 TTTCCGTATG
*
1447197 GGCACTATGTGTGCAACTCACGAAATTCATAATATGTTGATGAACAACCGTTTC
1 GGCACTATGTGTGCAACTCACGAAATTCATAATATGTTGATGAACAACCGTTTA
* * * *
1447251 GACACTATGTGTGCAACTCAC-ATAATTCATCATATATTGATGAACAACCGTTTT
1 GGCACTATGTGTGCAACTCACGA-AATTCATAATATGTTGATGAACAACCGTTTA
* * *
1447305 GGCACTATGTGT--AACTCACGGAATTCATCATATGTTGATGAACAACCATTTA
1 GGCACTATGTGTGCAACTCACGAAATTCATAATATGTTGATGAACAACCGTTTA
* *
1447357 GGCACTATGTGTGCAACCCACGGAATTCATAATATGTT-ATGAA
1 GGCACTATGTGTGCAACTCACGAAATTCATAATATGTTGATGAA
1447400 TGATCGTATT
Statistics
Matches: 134, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
52 47 0.35
53 6 0.04
54 81 0.60
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.31
Consensus pattern (54 bp):
GGCACTATGTGTGCAACTCACGAAATTCATAATATGTTGATGAACAACCGTTTA
Found at i:1447338 original size:106 final size:106
Alignment explanation
Indices: 1447197--1447399 Score: 291
Period size: 106 Copynumber: 1.9 Consensus size: 106
1447187 TTTCCGTATG
* *
1447197 GGCACTATGTGTGCAACTCACGAAATTCATAATATGTTGATGAACAACCGTTTCGACACTATGTG
1 GGCACTATGTGT-CAACTCACGAAATTCATAATATGTTGATGAACAACCATTTAGACACTATGTG
* * *
1447262 TGCAACTCACATAATTCATCATATATTGATGAACAACCGTTTT
65 TGCAACCCACAGAATTCATAATATATT-ATGAACAACCGTTTT
* * *
1447305 GGCACTATGTGT-AACTCACGGAATTCATCATATGTTGATGAACAACCATTTAGGCACTATGTGT
1 GGCACTATGTGTCAACTCACGAAATTCATAATATGTTGATGAACAACCATTTAGACACTATGTGT
* *
1447369 GCAACCCACGGAATTCATAATATGTTATGAA
66 GCAACCCACAGAATTCATAATATATTATGAA
1447400 TGATCGTATT
Statistics
Matches: 85, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
105 5 0.06
106 68 0.80
108 12 0.14
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.31
Consensus pattern (106 bp):
GGCACTATGTGTCAACTCACGAAATTCATAATATGTTGATGAACAACCATTTAGACACTATGTGT
GCAACCCACAGAATTCATAATATATTATGAACAACCGTTTT
Found at i:1447616 original size:45 final size:45
Alignment explanation
Indices: 1447566--1447703 Score: 213
Period size: 45 Copynumber: 3.1 Consensus size: 45
1447556 ACAAAAGACT
1447566 AAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCCATAAATG
1 AAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCCATAAATG
* * * *
1447611 AAATGCATAACGGTGTAATAAAAGCATGAAAGGGTGCCATAAATG
1 AAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCCATAAATG
* * *
1447656 AAATGCAGAACGGTGCATTAAAGGCATTAAAGGATGCCCTAAATG
1 AAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCCATAAATG
1447701 AAA
1 AAA
1447704 ATAATGAATA
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 82 1.00
ACGTcount: A:0.43, C:0.13, G:0.24, T:0.20
Consensus pattern (45 bp):
AAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCCATAAATG
Found at i:1447671 original size:24 final size:23
Alignment explanation
Indices: 1447600--1447671 Score: 67
Period size: 24 Copynumber: 3.1 Consensus size: 23
1447590 CATGAAAGGA
1447600 TGCCATAAATGAAATGCATAACGG
1 TGCCATAAATGAAATGCA-AACGG
** * * *
1447624 TGTAATAAAAG-CATG-AAAGGG
1 TGCCATAAATGAAATGCAAACGG
1447645 TGCCATAAATGAAATGCAGAACGG
1 TGCCATAAATGAAATGCA-AACGG
1447669 TGC
1 TGC
1447672 ATTAAAGGCA
Statistics
Matches: 35, Mismatches: 10, Indels: 6
0.69 0.20 0.12
Matches are distributed among these distances:
21 12 0.34
22 4 0.11
23 4 0.11
24 15 0.43
ACGTcount: A:0.42, C:0.14, G:0.25, T:0.19
Consensus pattern (23 bp):
TGCCATAAATGAAATGCAAACGG
Found at i:1450781 original size:30 final size:30
Alignment explanation
Indices: 1450696--1450783 Score: 113
Period size: 31 Copynumber: 2.9 Consensus size: 30
1450686 TTAGTACTCC
* *
1450696 TGTGCATTATCTGAATACAAACGTGACATAT
1 TGTGCATTATCTGAAT-GAAACCTGACATAT
* * *
1450727 TGTACCTTATCTGATTGTAAACCTGACATAT
1 TGTGCATTATCTGAATG-AAACCTGACATAT
1450758 TGTGCATTATCTGAATGAAACCTGAC
1 TGTGCATTATCTGAATGAAACCTGAC
1450784 TAGTATCTCG
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
30 9 0.19
31 39 0.81
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (30 bp):
TGTGCATTATCTGAATGAAACCTGACATAT
Found at i:1455694 original size:15 final size:15
Alignment explanation
Indices: 1455671--1455700 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1455661 ATTATTATGA
*
1455671 TAAATTTAATTTTGT
1 TAAAATTAATTTTGT
1455686 TAAAATTAATTTTGT
1 TAAAATTAATTTTGT
1455701 CACTATTAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (15 bp):
TAAAATTAATTTTGT
Found at i:1456983 original size:418 final size:415
Alignment explanation
Indices: 1456202--1456996 Score: 1198
Period size: 418 Copynumber: 1.9 Consensus size: 415
1456192 ATATTTTAAT
* *
1456202 TATAGTGACAAAATATATTGTCACAAAGATTTCCCTCCATATTTTTTTGCGCCAAAAAAGTCAAA
1 TATAGTAACAAAATATATTGTCACAAAGATTTCCCTCCATATTTTTTTGCGCCAAAAAAATCAAA
* * * *
1456267 TAGTGACAAATTTTGTAATTATAAGTGTTAATAATCATTACAAAAATATTGTCACAAAAAATAAC
66 TAGTAACAAATTTTGTAACTATAAGTGTTAATAATCATTACAAAAACATTATCACAAAAAATAAC
* ** *
1456332 GATATTCACGTTTTTGTGACAAATTATATTTGTAGTTATAAATTTTAACTATAGTGATAGCATAT
131 GATATTCACATTTTTGTGACAAATTATACGTGTAGTTATAAATTTTAACTATAGTGATAACATAT
* * * * *
1456397 ATTGTCATAACTATTTTTCTCAACTTTTTTGTTTCAAAAGTTATATTGACAATTTTTATAATTAT
196 ATTGTCATAAATATTTTTCTCAACTTTTTTGTTTAAAAAATTATATGGACAAATTTTATAATTAT
*
1456462 AATATATAGTTATTGTTATAGAAAAAATTATCACATCAAATAATAAAATTCATGTTTTTTGTAAT
261 AATATATAGTTATTGTTATAGAAAAAATTATCACATCAAATAATAAAATTCAAGTTTTTTGTAAT
1456527 AAATTATTTTTGTACTTATATATTTTAATCATTATGAAAAATTATACTATCAGAACCATTTCTCC
326 AAATTATTTTTGTACTTATATATTTTAATCATTATGAAAAATTATACTATCAGAACCATTTCTCC
1456592 CTATTTTTTAGTATAAAAAATGTTA
391 CTATTTTTTAGTATAAAAAATGTTA
* * *
1456617 TATAGTAACAAAATATATTGTCATAAAGATTTCCCTCCATA-TTTTTTGTGCCAAAAAAATCATA
1 TATAGTAACAAAATATATTGTCACAAAGATTTCCCTCCATATTTTTTTGCGCCAAAAAAATCAAA
* * * *
1456681 TAGTAACAATTTTTGTAACTATAATTGTTTATAATTATTACAAAAAAAACATTATCACAAAAAAT
66 TAGTAACAAATTTTGTAACTATAAGTGTTAATAATCATTAC---AAAAACATTATCACAAAAAAT
* * * *
1456746 AATGGTATTCACATTTTT-TGGCAAATTATACGTGTAGTTATAAATTTTAATTATAGTGATAACA
128 AACGATATTCACATTTTTGTGACAAATTATACGTGTAGTTATAAATTTTAACTATAGTGATAACA
* * * *
1456810 TATATTGTGATAAATATTTTTCTCCACTTTTTTTGTTTAAAAAAATTATATGGATAAATTTTGTA
193 TATATTGTCATAAATATTTTTCTCAAC-TTTTTTGTTT-AAAAAATTATATGGACAAATTTTATA
* * * *
1456875 ATTATAATTTATAGTTATTTTTATAGAAAAAATTATCACATTAGATAATAAAATTCAAGTTTTTT
256 ATTATAATATATAGTTATTGTTATAGAAAAAATTATCACATCAAATAATAAAATTCAAGTTTTTT
* *
1456940 GTAATCAATTATTTTTGTAGTTATATATTTTAATCATTATGAAAAATTATACTATCA
321 GTAATAAATTATTTTTGTACTTATATATTTTAATCATTATGAAAAATTATACTATCA
1456997 ACAAAAATAA
Statistics
Matches: 338, Mismatches: 37, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
414 55 0.16
415 39 0.12
416 65 0.19
417 44 0.13
418 135 0.40
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (415 bp):
TATAGTAACAAAATATATTGTCACAAAGATTTCCCTCCATATTTTTTTGCGCCAAAAAAATCAAA
TAGTAACAAATTTTGTAACTATAAGTGTTAATAATCATTACAAAAACATTATCACAAAAAATAAC
GATATTCACATTTTTGTGACAAATTATACGTGTAGTTATAAATTTTAACTATAGTGATAACATAT
ATTGTCATAAATATTTTTCTCAACTTTTTTGTTTAAAAAATTATATGGACAAATTTTATAATTAT
AATATATAGTTATTGTTATAGAAAAAATTATCACATCAAATAATAAAATTCAAGTTTTTTGTAAT
AAATTATTTTTGTACTTATATATTTTAATCATTATGAAAAATTATACTATCAGAACCATTTCTCC
CTATTTTTTAGTATAAAAAATGTTA
Found at i:1459173 original size:22 final size:22
Alignment explanation
Indices: 1459146--1459188 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1459136 TAAAATATAT
*
1459146 TTTTAGTTATCATAACAAATTA
1 TTTTAGTTATAATAACAAATTA
1459168 TTTTAGTTATAATAACAAATT
1 TTTTAGTTATAATAACAAATT
1459189 TAAATAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.47
Consensus pattern (22 bp):
TTTTAGTTATAATAACAAATTA
Found at i:1459303 original size:13 final size:14
Alignment explanation
Indices: 1459275--1459314 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
1459265 ACATAAAAAA
1459275 TTATGTCAAAATTAT
1 TTATGTCAAAA-TAT
1459290 TTAT-TCAAAATAT
1 TTATGTCAAAATAT
1459303 TT-TGTCAAAATA
1 TTATGTCAAAATA
1459315 AAAAAATTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 1 0.04
13 13 0.54
14 6 0.25
15 4 0.17
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.45
Consensus pattern (14 bp):
TTATGTCAAAATAT
Found at i:1459569 original size:198 final size:196
Alignment explanation
Indices: 1459231--1459631 Score: 563
Period size: 198 Copynumber: 2.0 Consensus size: 196
1459221 TTATGATACT
* * *
1459231 TTATTTAGACAAAATAACAAATTAAATTTAGTTAACATAAAAAATTATGTCAAAATTATTTATTC
1 TTATTTAGACAAAATAACAAATTAAATTTAATCAACATAAAAAATTATGTCAAAATTATTTAGTC
* * *
1459296 AAAATATTTTGTCAAAATAAAAAAATTTGACAAATTTATTTAATCAAAATAATAATTTAAAATAA
66 AAAACATTTTGTCAAAATAAAAAAATTTGACAAATTTATTTAATCAAAATAACAATTTAAAACAA
* *
1459361 ATATTAATTTCTCAATATAAAAAACTGTGACAACTAATATTCTTTCACAATAACAAATTGTAACA
131 AAATTAATTTCTCAATATAAAAAACTGTGACAAATAATATTCTTTCACAATAACAAATTGTAA-A
1459426 AGA
195 A-A
* * ** * * *
1459429 TTATTTAGTCACAATAACACGTTAAATTTAATCAA-AGTAAAAAGTTATGTCAAATTTATTTCGT
1 TTATTTAGACAAAATAACAAATTAAATTTAATCAACA-TAAAAAATTATGTCAAAATTATTTAGT
* * *
1459493 CATAACATTTTGTCAAAAT-AAAAAATTGTGACAAATTTATTTAATCAAAATGACAATTTATAAC
65 CAAAACATTTTGTCAAAATAAAAAAATT-TGACAAATTTATTTAATCAAAATAACAATTTAAAAC
* **
1459557 AAAAATTAATTTCTCATTATAAAAATTTGTGACAAATAATATTCTTTCACAATAACAAATTGTAA
129 AAAAATTAATTTCTCAATATAAAAAACTGTGACAAATAATATTCTTTCACAATAACAAATTGTAA
1459622 AAA
194 AAA
1459625 TTATTTA
1 TTATTTA
1459632 TTTACAGTAA
Statistics
Matches: 180, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
196 8 0.04
197 11 0.06
198 161 0.89
ACGTcount: A:0.48, C:0.10, G:0.05, T:0.36
Consensus pattern (196 bp):
TTATTTAGACAAAATAACAAATTAAATTTAATCAACATAAAAAATTATGTCAAAATTATTTAGTC
AAAACATTTTGTCAAAATAAAAAAATTTGACAAATTTATTTAATCAAAATAACAATTTAAAACAA
AAATTAATTTCTCAATATAAAAAACTGTGACAAATAATATTCTTTCACAATAACAAATTGTAAAA
A
Found at i:1469411 original size:487 final size:487
Alignment explanation
Indices: 1468498--1469464 Score: 1772
Period size: 487 Copynumber: 2.0 Consensus size: 487
1468488 GTCCTCGCTT
*
1468498 TAGATTTTACTGGGATATTCATCTCGACACAAAGAGACTAGTGTAATGATTTGAATGTACTCGTA
1 TAGATTTTACTGGGAGATTCATCTCGACACAAAGAGACTAGTGTAATGATTTGAATGTACTCGTA
* *
1468563 TTCATAAAGTTAGGGAACTTAACATTGCCTATTACTTTAGCGGAATACCCTTAGTAAAAGGATTC
66 TTCATAAAGTTAGGGAACTTAACATTGCCCATTACTTTAGCGAAATACCCTTAGTAAAAGGATTC
*
1468628 AAGTGTTAGAAAGTTTTCGACTTGACAAACTCAAACGAAACTCACTTCATAAAGCTCGGACATTA
131 AAGTGTCAGAAAGTTTTCGACTTGACAAACTCAAACGAAACTCACTTCATAAAGCTCGGACATTA
1468693 CCACCATAGATGCTTCAGACATTACCTCCGAAGATTAACAGCCTACTACTTTCAGCAGAGTGCCC
196 CCACCATAGATGCTTCAGACATTACCTCCGAAGATTAACAGCCTACTACTTTCAGCAGAGTGCCC
*
1468758 CCAGGATTGTTAAAATCACATTAATTCTTCGATTTTGAGATTTCCTAAGTTTGTCAGGAAGAATC
261 CCAGGATTGTTAAAATCACATTAATTCTTCGATTTTGAGATTTCCTAAGTTTGTAAGGAAGAATC
*
1468823 TGTTATAGTCTGAGTGTCAGTGGAAATCGGAAAATTTCATCTTTAGAACACAATTCCTAAGCAAC
326 TGTTATAGTCTGAGTGTCAGTGGAAATCAGAAAATTTCATCTTTAGAACACAATTCCTAAGCAAC
*
1468888 TCATCTAAGCCAATTTTTTTTATTCCACCATTCTATTTGTGAAAATTGTATATCGTCACGGAACG
391 TCATCTAAGCCAAATTTTTTTATTCCACCATTCTATTTGTGAAAATTGTATATCGTCACGGAACG
*
1468953 TCCTTAACACACATGCAAACTATCTTGACACA
456 TCCTTAACACACATACAAACTATCTTGACACA
* *
1468985 TAGATTTTACTGGGAGATTCATCTCGACACATAGAGACTAGTGTCATGATTTGAATGTACTCGTA
1 TAGATTTTACTGGGAGATTCATCTCGACACAAAGAGACTAGTGTAATGATTTGAATGTACTCGTA
* *
1469050 TTCATAAAGTTAGGGAACTTAACATTGCCCATTACTTTAGCGAAATGCCCTTAGTTAAAGGATTC
66 TTCATAAAGTTAGGGAACTTAACATTGCCCATTACTTTAGCGAAATACCCTTAGTAAAAGGATTC
*
1469115 AAGTGTCATAAAGTTTTCGACTTGACAAACTCAAACGAAACTCACTTCATAAAGCTCGGACATTA
131 AAGTGTCAGAAAGTTTTCGACTTGACAAACTCAAACGAAACTCACTTCATAAAGCTCGGACATTA
* *
1469180 CCACCATAGCTGCTTCAGACATTACCTCCGAAGATTAACAGCCTACTACTTTCAGTAGAGTGCCC
196 CCACCATAGATGCTTCAGACATTACCTCCGAAGATTAACAGCCTACTACTTTCAGCAGAGTGCCC
*
1469245 CCAGGATTGTTAAAATCACATTAATTCTTCGATTTTGAGATTTCCTAAGTTTGTAATGAAGAATC
261 CCAGGATTGTTAAAATCACATTAATTCTTCGATTTTGAGATTTCCTAAGTTTGTAAGGAAGAATC
*
1469310 TGTTATAGTCTGAGTGTCAGTGGAAATCAGAAAATTTCATCTTTAGAACTCAATTCCTAAGCAAC
326 TGTTATAGTCTGAGTGTCAGTGGAAATCAGAAAATTTCATCTTTAGAACACAATTCCTAAGCAAC
1469375 TCATCTAAGCCAAATTTTTTTATTCCACCATTCTATTTGTGAAAATTGTATATCGTCACGGAACG
391 TCATCTAAGCCAAATTTTTTTATTCCACCATTCTATTTGTGAAAATTGTATATCGTCACGGAACG
*
1469440 TCCTTAACACACATATAAACTATCT
456 TCCTTAACACACATACAAACTATCT
1469465 GACTTGCAAT
Statistics
Matches: 462, Mismatches: 18, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
487 462 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (487 bp):
TAGATTTTACTGGGAGATTCATCTCGACACAAAGAGACTAGTGTAATGATTTGAATGTACTCGTA
TTCATAAAGTTAGGGAACTTAACATTGCCCATTACTTTAGCGAAATACCCTTAGTAAAAGGATTC
AAGTGTCAGAAAGTTTTCGACTTGACAAACTCAAACGAAACTCACTTCATAAAGCTCGGACATTA
CCACCATAGATGCTTCAGACATTACCTCCGAAGATTAACAGCCTACTACTTTCAGCAGAGTGCCC
CCAGGATTGTTAAAATCACATTAATTCTTCGATTTTGAGATTTCCTAAGTTTGTAAGGAAGAATC
TGTTATAGTCTGAGTGTCAGTGGAAATCAGAAAATTTCATCTTTAGAACACAATTCCTAAGCAAC
TCATCTAAGCCAAATTTTTTTATTCCACCATTCTATTTGTGAAAATTGTATATCGTCACGGAACG
TCCTTAACACACATACAAACTATCTTGACACA
Found at i:1479931 original size:20 final size:20
Alignment explanation
Indices: 1479906--1479948 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
1479896 ACTAAGAGCC
*
1479906 CATTTAGGATCATATAGATG
1 CATTTAGGAGCATATAGATG
*
1479926 CATTTAGGAGCATATAGTTG
1 CATTTAGGAGCATATAGATG
1479946 CAT
1 CAT
1479949 GTGGTGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGAGCATATAGATG
Found at i:1485192 original size:2 final size:2
Alignment explanation
Indices: 1485185--1485242 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
1485175 GGTTACTAAA
1485185 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
1485227 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
1485243 TGAAACAAAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1489101 original size:15 final size:15
Alignment explanation
Indices: 1489081--1489128 Score: 78
Period size: 15 Copynumber: 3.2 Consensus size: 15
1489071 TATAGTTAAC
1489081 TGATATTCTAATTTT
1 TGATATTCTAATTTT
1489096 TGATATTCTAATTTT
1 TGATATTCTAATTTT
* *
1489111 TTATATTTTAATTTT
1 TGATATTCTAATTTT
1489126 TGA
1 TGA
1489129 CGGCGAGTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.27, C:0.04, G:0.06, T:0.62
Consensus pattern (15 bp):
TGATATTCTAATTTT
Found at i:1490133 original size:4 final size:4
Alignment explanation
Indices: 1490124--1490192 Score: 102
Period size: 4 Copynumber: 17.2 Consensus size: 4
1490114 AAGAATCAAG
* *
1490124 GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT CAAT GAAT CAAT GAAT
1 GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT
* *
1490172 CAAT GAAT CAAT GAAT GAAT G
1 GAAT GAAT GAAT GAAT GAAT G
1490193 GATGGATCAT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 57 1.00
ACGTcount: A:0.49, C:0.06, G:0.20, T:0.25
Consensus pattern (4 bp):
GAAT
Found at i:1499959 original size:24 final size:24
Alignment explanation
Indices: 1499841--1499956 Score: 162
Period size: 24 Copynumber: 4.8 Consensus size: 24
1499831 TTCGATTTGA
1499841 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
*
1499865 ATTCTGATCTGATA-TCTGACATAG
1 ATTCTGATCTGATACT-TGACATGG
*
1499889 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
* *
1499913 ATTCTGATCTGATACTTGGCCTGG
1 ATTCTGATCTGATACTTGACATGG
* *
1499937 ATTTTGATATGATACTTGAC
1 ATTCTGATCTGATACTTGAC
1499957 CTGATTTATG
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
23 1 0.01
24 80 0.98
25 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:1502059 original size:29 final size:29
Alignment explanation
Indices: 1502009--1502077 Score: 68
Period size: 29 Copynumber: 2.3 Consensus size: 29
1501999 AATTCGAAAC
* * * *
1502009 TGGTGATATTTTGGTAAATAA-TTCATTTT
1 TGGTGCTATTCTGGGAAATAATTTC-TGTT
*
1502038 TGGTGCTATTCTGGGAATTAATTTCTGTT
1 TGGTGCTATTCTGGGAAATAATTTCTGTT
1502067 TGAGTGCTATT
1 TG-GTGCTATT
1502078 TGTGTAAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 22 0.67
30 11 0.33
ACGTcount: A:0.22, C:0.07, G:0.22, T:0.49
Consensus pattern (29 bp):
TGGTGCTATTCTGGGAAATAATTTCTGTT
Found at i:1503531 original size:18 final size:18
Alignment explanation
Indices: 1503504--1503543 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1503494 AGGACTAAAG
*
1503504 TAAATGATAAAATCGAAT
1 TAAATAATAAAATCGAAT
* *
1503522 TAAATAATAAGATCGGAT
1 TAAATAATAAAATCGAAT
1503540 TAAA
1 TAAA
1503544 GGAAAAGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.55, C:0.05, G:0.12, T:0.28
Consensus pattern (18 bp):
TAAATAATAAAATCGAAT
Found at i:1504759 original size:24 final size:24
Alignment explanation
Indices: 1504641--1504756 Score: 162
Period size: 24 Copynumber: 4.8 Consensus size: 24
1504631 TTCAATTTGA
*
1504641 ATTCTGATCTGTTACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
*
1504665 ATTCTGATCTGATA-TCTGACATAG
1 ATTCTGATCTGATACT-TGACATGG
*
1504689 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
*
1504713 ATTCTGATCTGATACTTGACCTGG
1 ATTCTGATCTGATACTTGACATGG
* *
1504737 ATTTTGATATGATACTTGAC
1 ATTCTGATCTGATACTTGAC
1504757 CTGATTTATG
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
23 1 0.01
24 81 0.98
25 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:1506185 original size:23 final size:23
Alignment explanation
Indices: 1506155--1506221 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
1506145 TTATTATATG
1506155 GCACTCCGGTGCAATTCTACGCA
1 GCACTCCGGTGCAATTCTACGCA
* **
1506178 GCACTCCGGTGCAACTCTACGTG
1 GCACTCCGGTGCAATTCTACGCA
* * *
1506201 GCACTTCAGTGCAATTATACG
1 GCACTCCGGTGCAATTCTACG
1506222 AGCTGTGGTG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.24
Consensus pattern (23 bp):
GCACTCCGGTGCAATTCTACGCA
Found at i:1510937 original size:21 final size:21
Alignment explanation
Indices: 1510912--1510953 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1510902 ACATATATGT
*
1510912 TATATGTGGTCCTTCGAGACA
1 TATATGTGGTCATTCGAGACA
1510933 TATATGTGGTCATTCGAGACA
1 TATATGTGGTCATTCGAGACA
1510954 AATGTCATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (21 bp):
TATATGTGGTCATTCGAGACA
Found at i:1512187 original size:22 final size:21
Alignment explanation
Indices: 1512157--1512221 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 21
1512147 ATGTGAAATC
*
1512157 TGTCCCGAAGGACCTCGTGT-A
1 TGTCCCGAAGGACCT-ATGTAA
1512178 TGTCCCCGAAGGACCTATGTAAA
1 TGT-CCCGAAGGACCTATGT-AA
1512201 TGTCCCGAAGGACCTATGTAA
1 TGTCCCGAAGGACCTATGTAA
1512222 CCCTCGACTC
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
21 8 0.20
22 28 0.70
23 4 0.10
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23
Consensus pattern (21 bp):
TGTCCCGAAGGACCTATGTAA
Found at i:1515197 original size:22 final size:22
Alignment explanation
Indices: 1515166--1515208 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1515156 TTATATATTT
*
1515166 ATGAATAGTACCGTGAACAGTA
1 ATGAACAGTACCGTGAACAGTA
*
1515188 ATGAACAGTACCGTTAACAGT
1 ATGAACAGTACCGTGAACAGT
1515209 GAACAGTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (22 bp):
ATGAACAGTACCGTGAACAGTA
Found at i:1515320 original size:21 final size:21
Alignment explanation
Indices: 1515283--1515322 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1515273 CAAAATGTGT
*
1515283 ATCGATGCACTGGTACAGTGC
1 ATCGATGCACTGCTACAGTGC
1515304 ATCGATGCA-TAGCTACAGT
1 ATCGATGCACT-GCTACAGT
1515323 ACTGCTACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (21 bp):
ATCGATGCACTGCTACAGTGC
Found at i:1515331 original size:11 final size:11
Alignment explanation
Indices: 1515315--1515356 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
1515305 TCGATGCATA
1515315 GCTACAGTACT
1 GCTACAGTACT
*
1515326 GCTACAGTAAT
1 GCTACAGTACT
*
1515337 GCTACATTACT
1 GCTACAGTACT
1515348 GCTACAGTA
1 GCTACAGTA
1515357 TTCCAGCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.29
Consensus pattern (11 bp):
GCTACAGTACT
Found at i:1515342 original size:22 final size:22
Alignment explanation
Indices: 1515315--1515356 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
1515305 TCGATGCATA
1515315 GCTACAGTACTGCTACAGTAAT
1 GCTACAGTACTGCTACAGTAAT
*
1515337 GCTACATTACTGCTACAGTA
1 GCTACAGTACTGCTACAGTA
1515357 TTCCAGCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.29
Consensus pattern (22 bp):
GCTACAGTACTGCTACAGTAAT
Found at i:1515859 original size:59 final size:59
Alignment explanation
Indices: 1515796--1516010 Score: 197
Period size: 59 Copynumber: 3.6 Consensus size: 59
1515786 CTTCCTCTTT
* * *
1515796 CATTTTAGCACATGAAGTGCCCTAT-TCGAAAATTCATACCATTAGTATGATTTTGTTAC
1 CATTTTAGCACATAAAATGCCCTATGT-GAAAATCCATACCATTAGTATGATTTTGTTAC
* *
1515855 CATTTTAGCACATAAAATGCCCTATGTGAAAATCCATACCATTAGTATGATTTTCTCATC
1 CATTTTAGCACATAAAATGCCCTATGTGAAAATCCATACCATTAGTATGATTTTGTTA-C
* * * * ** * * **
1515915 C-TTGTAGCACCCT-TAGTGCTTTA-GCTGGAAATCCATA-CACTCAGTATGATTTCCTTAC
1 CATTTTAGCA-CATAAAATGCCCTATG-TGAAAATCCATACCA-TTAGTATGATTTTGTTAC
* *
1515973 CATTTTAGCACATAAAATGCCCTATATGGAAATCCATA
1 CATTTTAGCACATAAAATGCCCTATGTGAAAATCCATA
1516011 TTTTTAATAT
Statistics
Matches: 126, Mismatches: 22, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
58 7 0.06
59 114 0.90
60 5 0.04
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (59 bp):
CATTTTAGCACATAAAATGCCCTATGTGAAAATCCATACCATTAGTATGATTTTGTTAC
Found at i:1515973 original size:118 final size:117
Alignment explanation
Indices: 1515839--1516101 Score: 328
Period size: 118 Copynumber: 2.2 Consensus size: 117
1515829 TCATACCATT
** * *
1515839 AGTATGATTTTGTTACCATTTTAGCACATAAAATGCCCTATGTGAAAATCCATACCATTAGTATG
1 AGTATGATTTCCTTACCATTTTAGCACATAAAATGCCCTATATGAAAATCCATACCATTAATATG
* * * * ** *
1515904 ATTTTCTCATCCTTGTAGCACCCTTAGTGCTTTAGCTGGAAATCCATACACTC
66 ATTTCCTCATCATT-TAGCACACTAAGTGCTCCAGATGGAAATCCATACACTC
* ***
1515957 AGTATGATTTCCTTACCATTTTAGCACATAAAATGCCCTATATGGAAATCCATATTTTTAATATG
1 AGTATGATTTCCTTACCATTTTAGCACATAAAATGCCCTATATGAAAATCCATACCATTAATATG
* * *
1516022 ATTTCCTTATCATTTAGCACACTAAGTGCTCCATATGGAAATCTATACACTC
66 ATTTCCTCATCATTTAGCACACTAAGTGCTCCAGATGGAAATCCATACACTC
* * *
1516074 AGTATAATTTCCTTATCGTTTTAGCACA
1 AGTATGATTTCCTTACCATTTTAGCACA
1516102 CAAAGTGCTC
Statistics
Matches: 124, Mismatches: 21, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
117 56 0.45
118 68 0.55
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (117 bp):
AGTATGATTTCCTTACCATTTTAGCACATAAAATGCCCTATATGAAAATCCATACCATTAATATG
ATTTCCTCATCATTTAGCACACTAAGTGCTCCAGATGGAAATCCATACACTC
Found at i:1516084 original size:58 final size:58
Alignment explanation
Indices: 1515940--1516114 Score: 201
Period size: 59 Copynumber: 3.0 Consensus size: 58
1515930 GTGCTTTAGC
* *
1515940 TGGAAATCCATACACTCAGTATGATTTCCTTACCATTTTAGCACA-TAAAATGC-CCTATA
1 TGGAAATCCATACACTCAGTATGATTTCCTTATCA-TTTAGCACACT-AAGTGCTCC-ATA
*** * *
1515999 TGGAAATCCATATTTTTAATATGATTTCCTTATCATTTAGCACACTAAGTGCTCCATA
1 TGGAAATCCATACACTCAGTATGATTTCCTTATCATTTAGCACACTAAGTGCTCCATA
* * * *
1516057 TGGAAATCTATACACTCAGTATAATTTCCTTATCGTTTTAGCACACAAAGTGCTCCAT
1 TGGAAATCCATACACTCAGTATGATTTCCTTATC-ATTTAGCACACTAAGTGCTCCAT
1516115 TCGGTAATCA
Statistics
Matches: 97, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
58 44 0.45
59 53 0.55
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (58 bp):
TGGAAATCCATACACTCAGTATGATTTCCTTATCATTTAGCACACTAAGTGCTCCATA
Found at i:1516575 original size:63 final size:64
Alignment explanation
Indices: 1516460--1516602 Score: 161
Period size: 63 Copynumber: 2.2 Consensus size: 64
1516450 CGGTGCATAG
*
1516460 CCTATGCATCGATGCATATATTACATTCGATGTTTTCATCTTAAAGGATGCATCGATACACT-A
1 CCTATGCATCGATGCATATACTACATTCGATGTTTTCATCTTAAAGGATGCATCGATACACTCA
* * * *
1516523 CCTATGCATCGATGCAT-TAACTACCTTCGATGTTTATTTAT-TT-AAGTG-TGCATCGGTGCAC
1 CCTATGCATCGATGCATAT-ACTACATTCGATG-TT-TTCATCTTAAAG-GATGCATCGATACAC
1516584 TCA
62 TCA
*
1516587 CTTATGCATCGATGCA
1 CCTATGCATCGATGCA
1516603 CCTTGCCCAG
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
62 1 0.01
63 43 0.62
64 21 0.30
65 4 0.06
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.36
Consensus pattern (64 bp):
CCTATGCATCGATGCATATACTACATTCGATGTTTTCATCTTAAAGGATGCATCGATACACTCA
Found at i:1521015 original size:22 final size:22
Alignment explanation
Indices: 1520984--1521026 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
1520974 TTATATATTT
*
1520984 ATGAATAGTACCGTGAACAGTA
1 ATGAACAGTACCGTGAACAGTA
* *
1521006 ATGAACAGTATCGTTAACAGT
1 ATGAACAGTACCGTGAACAGT
1521027 GAACAGTGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.26
Consensus pattern (22 bp):
ATGAACAGTACCGTGAACAGTA
Found at i:1521138 original size:21 final size:21
Alignment explanation
Indices: 1521101--1521140 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1521091 CAAAATGTGT
*
1521101 ATCGATGCACTGGTACAGTGC
1 ATCGATGCACTGCTACAGTGC
1521122 ATCGATGCA-TAGCTACAGT
1 ATCGATGCACT-GCTACAGT
1521141 ACTGCTACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (21 bp):
ATCGATGCACTGCTACAGTGC
Found at i:1521149 original size:11 final size:11
Alignment explanation
Indices: 1521133--1521174 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
1521123 TCGATGCATA
1521133 GCTACAGTACT
1 GCTACAGTACT
*
1521144 GCTACAGTAAT
1 GCTACAGTACT
*
1521155 GCTACATTACT
1 GCTACAGTACT
1521166 GCTACAGTA
1 GCTACAGTA
1521175 TTCCAGCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.29
Consensus pattern (11 bp):
GCTACAGTACT
Found at i:1521160 original size:22 final size:22
Alignment explanation
Indices: 1521133--1521174 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
1521123 TCGATGCATA
1521133 GCTACAGTACTGCTACAGTAAT
1 GCTACAGTACTGCTACAGTAAT
*
1521155 GCTACATTACTGCTACAGTA
1 GCTACAGTACTGCTACAGTA
1521175 TTCCAGCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.29
Consensus pattern (22 bp):
GCTACAGTACTGCTACAGTAAT
Found at i:1521843 original size:59 final size:58
Alignment explanation
Indices: 1521617--1521922 Score: 197
Period size: 59 Copynumber: 5.2 Consensus size: 58
1521607 CTTCCTCTTT
** * ** * * **
1521617 CATTTTAGCACACGAAGTGCCCTATTCAAAAATTCATACCATTAGTATGATTTTGTTAC
1 CATTTTAGCACATAAAATGCCCTATT-GGAAATCCATACAATTAGTATGATTTCCTTAC
* * * *
1521676 CATTTTAGCACATAAAATGCCCTATGTGAAAATCCATACCATTAGTATGATTTTCTCATC
1 CATTTTAGCACATAAAATGCCCTAT-TGGAAATCCATACAATTAGTATGATTTCCTTA-C
* * ** * ** * *
1521736 C-TTGTAGCACCTTTAGTGCTTTAGTTGGAAATCCATACACTCAGTATGATTTCCTTAC
1 CATTTTAGCACATAAAATGCCCTA-TTGGAAATCCATACAATTAGTATGATTTCCTTAC
*** * *
1521794 CATTTTAGCACATAAAATGCCCTATATGGAAATCCATATTTTTAATATGATTTCCTTAT
1 CATTTTAGCACATAAAATGCCCTAT-TGGAAATCCATACAATTAGTATGATTTCCTTAC
* * * * * * *
1521853 CA-TTTACCACACT-AAGTGCTCC-ATATGGAAATCTATACACTCAGTATAATTTCCTTAT
1 CATTTTAGCACA-TAAAATGC-CCTAT-TGGAAATCCATACAATTAGTATGATTTCCTTAC
*
1521911 CGTTTTAGCACA
1 CATTTTAGCACA
1521923 CAAAGTGCTC
Statistics
Matches: 195, Mismatches: 44, Indels: 16
0.76 0.17 0.06
Matches are distributed among these distances:
58 46 0.24
59 145 0.74
60 4 0.02
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (58 bp):
CATTTTAGCACATAAAATGCCCTATTGGAAATCCATACAATTAGTATGATTTCCTTAC
Found at i:1521843 original size:118 final size:117
Alignment explanation
Indices: 1521660--1521922 Score: 314
Period size: 118 Copynumber: 2.2 Consensus size: 117
1521650 TCATACCATT
** * *
1521660 AGTATGATTTTGTTACCATTTTAGCACATAAAATGCCCTATGTGAAAATCCATACCATTAGTATG
1 AGTATGATTTCCTTACCATTTTAGCACATAAAATGCCCTATATGAAAATCCATACCATTAATATG
* * * * **
1521725 ATTTTCTCATCCTTGTAGCAC-CTTTAGTGCTTTAGT-TGGAAATCCATACACTC
66 ATTTCCTCATCATT-TACCACAC-TAAGTGCTCCA-TATGGAAATCCATACACTC
* ***
1521778 AGTATGATTTCCTTACCATTTTAGCACATAAAATGCCCTATATGGAAATCCATATTTTTAATATG
1 AGTATGATTTCCTTACCATTTTAGCACATAAAATGCCCTATATGAAAATCCATACCATTAATATG
* *
1521843 ATTTCCTTATCATTTACCACACTAAGTGCTCCATATGGAAATCTATACACTC
66 ATTTCCTCATCATTTACCACACTAAGTGCTCCATATGGAAATCCATACACTC
* * *
1521895 AGTATAATTTCCTTATCGTTTTAGCACA
1 AGTATGATTTCCTTACCATTTTAGCACA
1521923 CAAAGTGCTC
Statistics
Matches: 124, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
116 1 0.01
117 54 0.44
118 69 0.56
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (117 bp):
AGTATGATTTCCTTACCATTTTAGCACATAAAATGCCCTATATGAAAATCCATACCATTAATATG
ATTTCCTCATCATTTACCACACTAAGTGCTCCATATGGAAATCCATACACTC
Found at i:1524339 original size:22 final size:22
Alignment explanation
Indices: 1524314--1524386 Score: 119
Period size: 22 Copynumber: 3.3 Consensus size: 22
1524304 CACCACAGCT
*
1524314 CGTATAAATGCACCGAAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
*
1524336 CGTAGAAGTGCACCGAAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
*
1524358 CGTAGAATTGCACCGAAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
1524380 CGTAGAA
1 CGTAGAA
1524387 TTTTGTCCAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.30, C:0.26, G:0.27, T:0.16
Consensus pattern (22 bp):
CGTAGAAATGCACCGAAGTGCC
Found at i:1524387 original size:22 final size:22
Alignment explanation
Indices: 1524322--1524388 Score: 125
Period size: 22 Copynumber: 3.0 Consensus size: 22
1524312 CTCGTATAAA
*
1524322 TGCACCGAAGTGCCCGTAGAAG
1 TGCACCGAAGTGCCCGTAGAAT
1524344 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1524366 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1524388 T
1 T
1524389 TTGTCCATAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.27, C:0.27, G:0.28, T:0.18
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:1524658 original size:30 final size:31
Alignment explanation
Indices: 1524608--1524666 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
1524598 TAGACATAGT
*
1524608 ATTTCCATACCTTTAACACATAG-GCATATC
1 ATTTACATACCTTTAACACATAGTGCATATC
* *
1524638 ATTTACATACTTTTATCACATAGTGCATA
1 ATTTACATACCTTTAACACATAGTGCATA
1524667 GAACTTTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.37
Consensus pattern (31 bp):
ATTTACATACCTTTAACACATAGTGCATATC
Found at i:1524723 original size:29 final size:29
Alignment explanation
Indices: 1524681--1524752 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 29
1524671 TTTTCTGCAT
**
1524681 ATTCATGTCATGTAATACATATAAGATGA
1 ATTCATGTCATGTAATACATATAAGACAA
* *
1524710 ATTCATGTCATGTAATACATTTAATACAA
1 ATTCATGTCATGTAATACATATAAGACAA
1524739 ATTCATGTCATGTA
1 ATTCATGTCATGTA
1524753 TCATAATATG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAAGACAA
Found at i:1525170 original size:67 final size:66
Alignment explanation
Indices: 1525053--1525203 Score: 203
Period size: 67 Copynumber: 2.3 Consensus size: 66
1525043 TTTTTCTCAT
* * *
1525053 GGGGGAATCGGTTCCCCCCCCTGGGGTATCAATTCCCCTCAAGCAATCTGGAATTCATATACGAT
1 GGGGGTATCGGTT-CCCCCCCTGGGGTACCAATTCCCCTCAAGCAATCTGGAAATCATATACGAT
1525118 GA
65 GA
* * * * *
1525120 GGGGGTATCGGTTCCCCCCCTGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATCATATTCGTT
1 GGGGGTATCGGTTCCCCCCCT-GGGGTACCAATTCCCCTCAAGCAATCTGGAAATCATATACGAT
1525185 GA
65 GA
*
1525187 AGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
1525204 TTGAATGGGT
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
66 8 0.11
67 66 0.89
ACGTcount: A:0.19, C:0.28, G:0.26, T:0.26
Consensus pattern (66 bp):
GGGGGTATCGGTTCCCCCCCTGGGGTACCAATTCCCCTCAAGCAATCTGGAAATCATATACGATG
A
Found at i:1525213 original size:21 final size:21
Alignment explanation
Indices: 1525183--1525225 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1525173 ATCATATTCG
* *
1525183 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1525204 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1525225 T
1 T
1525226 AACCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1525214 original size:67 final size:66
Alignment explanation
Indices: 1525054--1525225 Score: 186
Period size: 67 Copynumber: 2.6 Consensus size: 66
1525044 TTTTCTCATG
* * * *
1525054 GGGGAATCGGTTCCCCCCCCT-GGGGTATCAATTCCCCTCAAGCAATCTGGAATTCATATACGAT
1 GGGGTATCGGTT--CCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATCATATACGAT
*
1525118 GAG
64 GAA
* * * *
1525121 GGGGTATCGGTTCCCCCCCTGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATCATATTCGTTG
1 GGGGTATCGGTT-CCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATCATATACGATG
1525186 AA
65 AA
* *
1525188 GGGGTATCGGTT-CCCCTTGAATGGGTACCGATTCCCCT
1 GGGGTATCGGTTCCCCCCTG--GGGGTACCGATTCCCCT
1525226 AACCCAGAAA
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
65 6 0.07
66 8 0.09
67 77 0.85
ACGTcount: A:0.19, C:0.28, G:0.26, T:0.27
Consensus pattern (66 bp):
GGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATCATATACGATGA
A
Found at i:1531257 original size:21 final size:22
Alignment explanation
Indices: 1531207--1531269 Score: 110
Period size: 22 Copynumber: 2.9 Consensus size: 22
1531197 CGTATAAATG
*
1531207 ACCGAAGTGCCCGTAGAAGTGC
1 ACCGAAGTGCCCGTAGAATTGC
1531229 ACCGAAGTGCCCGTAGAATTGC
1 ACCGAAGTGCCCGTAGAATTGC
1531251 A-CGAAGTGCCCGTAGAATT
1 ACCGAAGTGCCCGTAGAATT
1531270 TTGTCCATAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
21 18 0.45
22 22 0.55
ACGTcount: A:0.29, C:0.25, G:0.29, T:0.17
Consensus pattern (22 bp):
ACCGAAGTGCCCGTAGAATTGC
Found at i:1531597 original size:28 final size:29
Alignment explanation
Indices: 1531557--1531627 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 29
1531547 CTTTCTGCAT
**
1531557 ATTCATGTCATGTAATACATATAAGA-TG
1 ATTCATGTCATGTAATACATATAAGACAA
* *
1531585 ATTCATGTCATGTAATACATTTAATACAA
1 ATTCATGTCATGTAATACATATAAGACAA
1531614 ATTCATGTCATGTA
1 ATTCATGTCATGTA
1531628 TCATAATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
28 24 0.63
29 14 0.37
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAAGACAA
Found at i:1532038 original size:64 final size:63
Alignment explanation
Indices: 1531919--1532063 Score: 179
Period size: 66 Copynumber: 2.3 Consensus size: 63
1531909 TTTTTCTCAT
*
1531919 GGGGGAATCGGTTCCCCCCCTGGGGTATCGATTCCCCTCAAGCAATGGAATTCATA-CGATGA
1 GGGGGTATCGGTTCCCCCCCTGGGGTATCGATTCCCCTCAAGCAATGGAATTCATATCGATGA
* * *
1531981 GGGGGTATCGGTTCCCCCCCTGGGGGGGTA-CGATTCCCCTCTAGCATTTGGAA-TCATATTCGT
1 GGGGGTATCGGTTCCCCCCCT---GGGGTATCGATTCCCCTCAAGCA-ATGGAATTCATA-TCGA
1532044 TGA
61 TGA
*
1532047 AGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
1532064 TTGAATGGGT
Statistics
Matches: 72, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
62 20 0.28
64 20 0.28
65 11 0.15
66 21 0.29
ACGTcount: A:0.18, C:0.27, G:0.30, T:0.26
Consensus pattern (63 bp):
GGGGGTATCGGTTCCCCCCCTGGGGTATCGATTCCCCTCAAGCAATGGAATTCATATCGATGA
Found at i:1532073 original size:21 final size:21
Alignment explanation
Indices: 1532043--1532085 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1532033 ATCATATTCG
* *
1532043 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1532064 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1532085 T
1 T
1532086 AACCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1532074 original size:64 final size:64
Alignment explanation
Indices: 1531920--1532085 Score: 155
Period size: 64 Copynumber: 2.6 Consensus size: 64
1531910 TTTTCTCATG
* * *
1531920 GGGGAATCGGTTCCCCCCCT---GGGGTATCGATTCCCCTCAAGCAATGGAATTCATACGATGAG
1 GGGGTATCGGTT-CCCCCCTGAAGGGGTACCGATTCCCCTCAAGCAATGGAATTCATACGATGAA
** * * *
1531982 GGGGTATCGGTTCCCCCCCTGGGGGGGTA-CGATTCCCCTCTAGCATTTGGAA-TCATATTCGTT
1 GGGGTATCGGTT-CCCCCCTGAAGGGGTACCGATTCCCCTCAAGCA-ATGGAATTCATA--CGAT
1532045 GAA
62 GAA
* *
1532048 GGGGTATCGGTT-CCCCTTGAATGGGTACCGATTCCCCT
1 GGGGTATCGGTTCCCCCCTGAAGGGGTACCGATTCCCCT
1532086 AACCCAGAAA
Statistics
Matches: 88, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
62 19 0.22
64 31 0.35
65 21 0.24
66 17 0.19
ACGTcount: A:0.18, C:0.27, G:0.28, T:0.27
Consensus pattern (64 bp):
GGGGTATCGGTTCCCCCCTGAAGGGGTACCGATTCCCCTCAAGCAATGGAATTCATACGATGAA
Found at i:1536464 original size:22 final size:22
Alignment explanation
Indices: 1536416--1536479 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
1536406 ATGTGAAATC
*
1536416 TGTCCCGAAAGACCTCATGT--A
1 TGTCCCGAAGGACCT-ATGTAAA
*
1536437 TGTCCCGGAGGACCTATGTAAA
1 TGTCCCGAAGGACCTATGTAAA
*
1536459 TGTCCCGAATGACCTATGTAA
1 TGTCCCGAAGGACCTATGTAA
1536480 CCCTCGACTC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 4 0.11
21 13 0.35
22 20 0.54
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (22 bp):
TGTCCCGAAGGACCTATGTAAA
Found at i:1541850 original size:18 final size:19
Alignment explanation
Indices: 1541829--1541871 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
1541819 TTTGGTACCA
1541829 ATACTAAAGGGG-GTATCG
1 ATACTAAAGGGGAGTATCG
* *
1541847 ATACCAAGGGGGTAGTATCG
1 ATACTAAAGGGG-AGTATCG
1541867 ATACT
1 ATACT
1541872 CTCAAAGAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 10 0.50
20 10 0.50
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.23
Consensus pattern (19 bp):
ATACTAAAGGGGAGTATCG
Found at i:1546387 original size:4 final size:4
Alignment explanation
Indices: 1546378--1547914 Score: 2816
Period size: 4 Copynumber: 392.0 Consensus size: 4
1546368 TATATAAATT
1546378 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1546426 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CA-A
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1546473 CATA CATA CATA CATA CATA CATA CATA CATA CATA C--A CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1546519 CATA CATA CATA CATA CATA CATA CATA CA-A CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1546566 CATA CAT- CATA CATA CATA CATA CATA CATA CAGA CATA C-TA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1546612 CATA CATA CATA CATA CATA CATA CATA CATA CATA -ATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1546659 CATA CATA CATA C-TA CATA CATA CATA CA-A CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1546705 CATA CATA CAT- CATA CAT- -ATA CATA CAT- -ATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1546748 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CCATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA -CATA CATA
1546797 CA-A CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1546844 CATA CATA CATA CATA CATA CATA CATA CA-A CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1546891 CATA CATA CATA CATA CAT- CATA CATA CATA -ATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1546937 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1546985 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1547033 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1547081 CATA CATA C-TA CATA CATA CATA CATA CAT- CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1547127 CATA CATA CATA CATA CATA CATA CATA CATA CATA -ATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1547174 -ATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1547221 CATA CATA CATA CATA CATA CATA CATA CA-A CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1547268 CATA CATA C-TA CATA CATA CATA CATA CATA CATA CAATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA C-ATA CATA CATA
1547316 CATA CATA CATA CATA CATA CATA CATA CATA C--A CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1547362 CATA CATA CATA CATA CA-A CATA C-TA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1547408 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1547456 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA C-TA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1547503 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1547551 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1547599 CATA CATA CATA CATA CATA C-TA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1547646 CATA CATA CA-A -ATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1547692 CATA CATA CATA C-TA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1547739 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1547787 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1547835 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1547883 CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA
1547915 TTATATTGTC
Statistics
Matches: 1496, Mismatches: 2, Indels: 70
0.95 0.00 0.04
Matches are distributed among these distances:
2 9 0.01
3 71 0.05
4 1408 0.94
5 8 0.01
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:1550858 original size:22 final size:22
Alignment explanation
Indices: 1550809--1550863 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
1550799 TGTTCATGGT
*
1550809 AATGTTCATGGTACTGTGCATC
1 AATGTTCACGGTACTGTGCATC
*
1550831 AATGTTCACGGTACTGCT-CATT
1 AATGTTCACGGTACTG-TGCATC
*
1550853 ATTGTTCACGG
1 AATGTTCACGG
1550864 CTATATTATC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 28 0.97
23 1 0.03
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (22 bp):
AATGTTCACGGTACTGTGCATC
Found at i:1551754 original size:19 final size:19
Alignment explanation
Indices: 1551730--1551797 Score: 82
Period size: 19 Copynumber: 3.5 Consensus size: 19
1551720 TCGAAGTTCG
*
1551730 CGTTGCAATTTTCCAAATT
1 CGTTGCGATTTTCCAAATT
** *
1551749 CGTTGCGATAGTCCAAGTT
1 CGTTGCGATTTTCCAAATT
1551768 CGCGTTGCGATTTTCCAAATT
1 --CGTTGCGATTTTCCAAATT
1551789 CGTTGCGAT
1 CGTTGCGAT
1551798 CGTCCAAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
19 24 0.60
21 16 0.40
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.37
Consensus pattern (19 bp):
CGTTGCGATTTTCCAAATT
Done.