Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 66 of 328
Found at i:18169865 original size:59 final size:59
Alignment explanation
Indices: 18169773--18169889 Score: 225
Period size: 59 Copynumber: 2.0 Consensus size: 59
18169763 TCGTACAGTG
*
18169773 TCATATTCTAGATATGGTCTTACATGTTATCACATATCGATGCCACTGTCTCAAACAGC
1 TCATATTCTAGATATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAAACAGC
18169832 TCATATTCTAGATATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAAACAG
1 TCATATTCTAGATATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAAACAG
18169890 GGTCTTACAC
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (59 bp):
TCATATTCTAGATATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAAACAGC
Found at i:18169961 original size:43 final size:43
Alignment explanation
Indices: 18169845--18169994 Score: 169
Period size: 43 Copynumber: 3.5 Consensus size: 43
18169835 TATTCTAGAT
* * * *
18169845 ATGGTCTTACATGTTATCAC-ATATCGATGCCACTGTCCCAAAC
1 ATGGTCTTACACGTAATCACAATA-CGATGCCAATGTCCCAGAC
* * * *
18169888 AGGGTCTTACACGAAATC-GATTAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACAAT-ACGATGCCAATGTCCCAGAC
* *
18169931 ATGGTCTTACACGTAATCACAATACAATGCCAATTTCCCAGAC
1 ATGGTCTTACACGTAATCACAATACGATGCCAATGTCCCAGAC
*
18169974 ATGGTCTTACATGTAATCACA
1 ATGGTCTTACACGTAATCACA
18169995 TCTCGGTAAC
Statistics
Matches: 89, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
43 86 0.97
44 3 0.03
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCACAATACGATGCCAATGTCCCAGAC
Found at i:18181553 original size:3 final size:3
Alignment explanation
Indices: 18181547--18181579 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
18181537 GGTACTACAT
18181547 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
18181580 AAATATTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:18182122 original size:18 final size:19
Alignment explanation
Indices: 18182080--18182122 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
18182070 TTGTATTTTT
*
18182080 TATTTTATTTTTTAAATAT
1 TATTTTATTTTTTAAATAA
* *
18182099 TTTTTTA-TTTTTAATTAA
1 TATTTTATTTTTTAAATAA
18182117 TATTTT
1 TATTTT
18182123 TAATATATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (19 bp):
TATTTTATTTTTTAAATAA
Found at i:18182122 original size:19 final size:19
Alignment explanation
Indices: 18182082--18182124 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
18182072 GTATTTTTTA
*
18182082 TTTTATTTTTTAAATATTT
1 TTTTATTTTTTAAATATAT
*
18182101 TTTTA-TTTTTAATTAATAT
1 TTTTATTTTTTAAAT-ATAT
18182120 TTTTA
1 TTTTA
18182125 ATATATTAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTATTTTTTAAATATAT
Found at i:18182218 original size:138 final size:136
Alignment explanation
Indices: 18182014--18182264 Score: 308
Period size: 138 Copynumber: 1.8 Consensus size: 136
18182004 TGTTAGATAG
* * ***** *
18182014 TTAAATATTAGTGATTTTATCCTTAATCTCAGGTTCAATTCCTCTTTTGCTCGTATTTGTATTTT
1 TTAAATAATAGTGATTTTATCCTTAATCTCAGGTTCAATTCATCTTTTGAAAACATTTGTAATTT
*
18182079 TTATTT-TATTTTTTAAATATTTTTTTATTTTTAATTAATATTTTTAATATATTAGCTCTATTGG
66 TTATTTATATTGTTTAAA-A-TTTTTTATTTTTAATTAATATTTTTAATATATTAGCTCTATTGG
18182143 TTAAATGA
129 TTAAATGA
* *
18182151 TTAAATAATATTGATTTTATCCTTTA-CTCCTAGGTTCAATTCATCTTTTGAAAACATTTGTAAT
1 TTAAATAATAGTGATTTTATCCTTAATCT-C-AGGTTCAATTCATCTTTTGAAAACATTTGTAAT
* * * *
18182215 TTTTATTTCATATTGTTTCAAATTTTTTATTTTTTATTTATCTTTTTAAT
64 TTTTATTT-ATATTGTTTAAAATTTTTTATTTTTAATTAATATTTTTAAT
18182265 TAATAACTCT
Statistics
Matches: 95, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
136 2 0.02
137 24 0.25
138 59 0.62
139 1 0.01
140 9 0.09
ACGTcount: A:0.27, C:0.10, G:0.07, T:0.57
Consensus pattern (136 bp):
TTAAATAATAGTGATTTTATCCTTAATCTCAGGTTCAATTCATCTTTTGAAAACATTTGTAATTT
TTATTTATATTGTTTAAAATTTTTTATTTTTAATTAATATTTTTAATATATTAGCTCTATTGGTT
AAATGA
Found at i:18202940 original size:20 final size:20
Alignment explanation
Indices: 18202888--18202940 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
18202878 ACGGTTGAAG
* *
18202888 CACACGGGCATGTTCCAGGC
1 CACACGGGCGTGTTCCAAGC
*
18202908 CACACGGGTGTGTTCCAAGC
1 CACACGGGCGTGTTCCAAGC
*
18202928 CACACAGGCGTGT
1 CACACGGGCGTGT
18202941 GCCCCTATCT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.21, C:0.32, G:0.30, T:0.17
Consensus pattern (20 bp):
CACACGGGCGTGTTCCAAGC
Found at i:18204181 original size:14 final size:13
Alignment explanation
Indices: 18204156--18204182 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
18204146 TTGATTTATG
18204156 TGTAACTTTTTTT
1 TGTAACTTTTTTT
18204169 TGTAACTTTTTTT
1 TGTAACTTTTTTT
18204182 T
1 T
18204183 AACTTGTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.07, G:0.07, T:0.70
Consensus pattern (13 bp):
TGTAACTTTTTTT
Found at i:18205576 original size:39 final size:39
Alignment explanation
Indices: 18205532--18205740 Score: 179
Period size: 39 Copynumber: 5.2 Consensus size: 39
18205522 AAATACCAAT
* *
18205532 AATTTAAAAATAGGATAAAAAATAAAATATGAACAGATA
1 AATTTAAAAACAGGATTAAAAATAAAATATGAACAGATA
* * **
18205571 AATTTAGAAACAAGATTAAAAATAAAATATGGTCAGATA
1 AATTTAAAAACAGGATTAAAAATAAAATATGAACAGATA
** * *
18205610 AATTTAAAAACAATATTAAAAATAAATTATGAACATATACCAA
1 AATTTAAAAACAGGATTAAAAATAAAATATGAACAGAT----A
* *
18205653 TAATTTAAAAACAGGATT-AAAA-AAATTATGAATAGATACCAA
1 -AATTTAAAAACAGGATTAAAAATAAAATATGAACAGAT----A
* * *
18205695 TAATTTAAAAACAGGATTAAAAATAAAACAGGAACATATA
1 -AATTTAAAAACAGGATTAAAAATAAAATATGAACAGATA
18205735 AATTTA
1 AATTTA
18205741 GGCTTGGGAT
Statistics
Matches: 142, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
39 71 0.50
40 1 0.01
42 36 0.25
43 9 0.06
44 25 0.18
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (39 bp):
AATTTAAAAACAGGATTAAAAATAAAATATGAACAGATA
Found at i:18209376 original size:25 final size:25
Alignment explanation
Indices: 18209330--18209379 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
18209320 ACAATAATCA
*
18209330 GAGTTTAAGTGGGAAACTAAAAACT
1 GAGTTTAAGTGGGAAACGAAAAACT
*
18209355 GAGTTTAATTGGGAGAA-GAAAAACT
1 GAGTTTAAGTGGGA-AACGAAAAACT
18209380 AAAAAATAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.44, C:0.06, G:0.26, T:0.24
Consensus pattern (25 bp):
GAGTTTAAGTGGGAAACGAAAAACT
Found at i:18209612 original size:24 final size:24
Alignment explanation
Indices: 18209567--18209612 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
18209557 ACACTAATCA
*
18209567 GAGTTTAAGTGGGAAACTAAAACG
1 GAGTTTAAGTGGGAAACGAAAACG
*
18209591 GAGTTTAATTGGGAGAA-GAAAA
1 GAGTTTAAGTGGGA-AACGAAAA
18209613 ACTAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 17 0.89
25 2 0.11
ACGTcount: A:0.43, C:0.04, G:0.30, T:0.22
Consensus pattern (24 bp):
GAGTTTAAGTGGGAAACGAAAACG
Found at i:18209725 original size:236 final size:237
Alignment explanation
Indices: 18209311--18209787 Score: 875
Period size: 236 Copynumber: 2.0 Consensus size: 237
18209301 AATAATATTA
*
18209311 AAATAACCAACAATAATCAGAGTTTAAGTGGGAAACTAAAAACTGAGTTTAATTGGGAGAAGAAA
1 AAATAACCAACAATAATCAGAGTTTAAGTGGGAAACTAAAAACGGAGTTTAATTGGGAGAAGAAA
18209376 AACTAAAAAATAAGAGGCATAACTCCACGAATCTCCACCTTGACTCATATTTTCACAGCACCTTC
66 AACTAAAAAATAAGAGGCATAACTCCACGAATCTCCACCTTGACTCATATTTTCACAGCACCTTC
18209441 TTTGCGAAAGCCCATCATGGGCTTATCTCAAACTATGCAAGATATTAATTGAGTTGAAGTTGTGC
131 TTTGCGAAAGCCCATCATGGGCTTATCTCAAACTATGCAAGATATTAATTGAGTTGAAGTTGTGC
18209506 TTAGAAGCTAGAAGTCTTTTAGTCTTCGACTTGTGCACTATC
196 TTAGAAGCTAGAAGTCTTTTAGTCTTCGACTTGTGCACTATC
*
18209548 AAATAACCAACACTAATCAGAGTTTAAGTGGGAAACT-AAAACGGAGTTTAATTGGGAGAAGAAA
1 AAATAACCAACAATAATCAGAGTTTAAGTGGGAAACTAAAAACGGAGTTTAATTGGGAGAAGAAA
* * * *
18209612 AACTAAAAAATACGAGGCATAACTCCATGAATCTCTACCTTGACTCGTATTTTCACAGCACCTTC
66 AACTAAAAAATAAGAGGCATAACTCCACGAATCTCCACCTTGACTCATATTTTCACAGCACCTTC
* *
18209677 TTTGCGAAAGCCCATCATGGGCTTATCTCGAACTATGCAAGATATTAATTGAGTTGAAGTTGTGT
131 TTTGCGAAAGCCCATCATGGGCTTATCTCAAACTATGCAAGATATTAATTGAGTTGAAGTTGTGC
18209742 TTAGAAGCTAGAAGTCTTTTAGTCTTCGACTTGTGCACTATC
196 TTAGAAGCTAGAAGTCTTTTAGTCTTCGACTTGTGCACTATC
18209784 AAAT
1 AAAT
18209788 CAAAACTGAC
Statistics
Matches: 232, Mismatches: 8, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
236 196 0.84
237 36 0.16
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (237 bp):
AAATAACCAACAATAATCAGAGTTTAAGTGGGAAACTAAAAACGGAGTTTAATTGGGAGAAGAAA
AACTAAAAAATAAGAGGCATAACTCCACGAATCTCCACCTTGACTCATATTTTCACAGCACCTTC
TTTGCGAAAGCCCATCATGGGCTTATCTCAAACTATGCAAGATATTAATTGAGTTGAAGTTGTGC
TTAGAAGCTAGAAGTCTTTTAGTCTTCGACTTGTGCACTATC
Found at i:18210621 original size:30 final size:30
Alignment explanation
Indices: 18210587--18210645 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
18210577 TCAACAGATG
18210587 ACTCTTCACATCCCCGAATGAGAGATTAAA
1 ACTCTTCACATCCCCGAATGAGAGATTAAA
*
18210617 ACTCTTCACATCCTCGAATGAGAGATTAA
1 ACTCTTCACATCCCCGAATGAGAGATTAA
18210646 CTCTGCCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (30 bp):
ACTCTTCACATCCCCGAATGAGAGATTAAA
Found at i:18218390 original size:20 final size:20
Alignment explanation
Indices: 18218367--18218411 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
18218357 AATAACATTC
18218367 AAAAAA-TT-AAAGTATTTATT
1 AAAAAATTTCAAAGT-TTTA-T
18218387 AAAAAATTTCAAAGTTTTAT
1 AAAAAATTTCAAAGTTTTAT
18218407 AAAAA
1 AAAAA
18218412 TTATAGATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 12 0.52
21 6 0.26
22 5 0.22
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (20 bp):
AAAAAATTTCAAAGTTTTAT
Found at i:18218391 original size:21 final size:20
Alignment explanation
Indices: 18218367--18218411 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
18218357 AATAACATTC
18218367 AAAAAATT-AAAGTATTTATTA
1 AAAAAATTCAAAGT-TTTA-TA
*
18218388 AAAAATTTCAAAGTTTTATA
1 AAAAAATTCAAAGTTTTATA
18218408 AAAA
1 AAAA
18218412 TTATAGATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 6 0.27
21 11 0.50
22 5 0.23
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (20 bp):
AAAAAATTCAAAGTTTTATA
Found at i:18218680 original size:28 final size:29
Alignment explanation
Indices: 18218649--18218715 Score: 109
Period size: 28 Copynumber: 2.3 Consensus size: 29
18218639 TTAACAAGAT
*
18218649 TTTAATTTGATATGTTTAATAGTTTTT-A
1 TTTAATTTGACATGTTTAATAGTTTTTAA
18218677 TTTAATTTGACATGTTTAATAGTTTTTAA
1 TTTAATTTGACATGTTTAATAGTTTTTAA
*
18218706 TTTACTTTGA
1 TTTAATTTGA
18218716 ACAATTTCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 26 0.72
29 10 0.28
ACGTcount: A:0.28, C:0.03, G:0.10, T:0.58
Consensus pattern (29 bp):
TTTAATTTGACATGTTTAATAGTTTTTAA
Found at i:18221992 original size:22 final size:22
Alignment explanation
Indices: 18221958--18222002 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
18221948 AACATTAAAT
18221958 ATTTGCAGATAAACTGCCAGTA
1 ATTTGCAGATAAACTGCCAGTA
* * * *
18221980 ATTTGTAGTTAAATTGCTAGTA
1 ATTTGCAGATAAACTGCCAGTA
18222002 A
1 A
18222003 AAAGTTTGTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.36
Consensus pattern (22 bp):
ATTTGCAGATAAACTGCCAGTA
Found at i:18227727 original size:37 final size:37
Alignment explanation
Indices: 18227677--18227747 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
18227667 AAAGAAGAAG
*
18227677 AAAAATTACATTCGATTTCTTCCCTCTCCGGTAATGC
1 AAAAAATACATTCGATTTCTTCCCTCTCCGGTAATGC
18227714 AAAAAATACATTCGATTTCTTCCCTCTCCGGTAA
1 AAAAAATACATTCGATTTCTTCCCTCTCCGGTAA
18227748 GGCCCTTAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.30, C:0.27, G:0.10, T:0.34
Consensus pattern (37 bp):
AAAAAATACATTCGATTTCTTCCCTCTCCGGTAATGC
Found at i:18228671 original size:94 final size:93
Alignment explanation
Indices: 18228573--18229029 Score: 441
Period size: 94 Copynumber: 4.9 Consensus size: 93
18228563 TGTTGTAGTT
* *
18228573 TCAATCCGATCCACTACAACTTCAGGGATATAAGATTTGTAGCTTCAATCTGCTTCACTGTAACT
1 TCAATCCGA-CCACTACAACTTCAGGGGTATAAGATTTGTAGCTTCAATCTGCTTCACTGCAACT
* *
18228638 TAAGGGAGATAAGATTCACTATAGTAGAA
65 TCAGGGAGATAAGATTCGCTATAGTAGAA
* * * * * * *
18228667 TCAATCCGACTCACTGCAACTTTAGGGGTTTAAGATTTGTAGTTTCAATCTAC-TCTATTGCAAT
1 TCAATCCGAC-CACTACAACTTCAGGGGTATAAGATTTGTAGCTTCAATCTGCTTC-ACTGCAAC
* * *
18228731 TTCAGGGAGATAAAATTCGCTATGGTAGAT
64 TTCAGGGAGATAAGATTCGCTATAGTAGAA
* * * * * *
18228761 TCAATCCGACCTACTGCAACTTTAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTACGACT
1 TCAATCCGACC-ACTACAACTTCAGGGGTATAAGATTTGTAGCTTCAATCTGCTTCACTGCAACT
* * * * * * **
18228826 TCAGAGG-TATAGGATTTGTTGTTGTAGTT
65 TCAG-GGAGATAAGATTCGCTATAGTAGAA
* * * * * *
18228855 TCAATCCAACCCATTACAACTTCAGGGATATAATATTTGTAGCTTCAATCTGCTTCATTGCATCT
1 TCAATCCGA-CCACTACAACTTCAGGGGTATAAGATTTGTAGCTTCAATCTGCTTCACTGCAACT
*
18228920 TCAGGGAGATAAGATTCGTTATAGTAGAA
65 TCAGGGAGATAAGATTCGCTATAGTAGAA
* * * * * * *
18228949 TTAATCCGACCCACTACAACTTCAGGGGTATAAAAATTATAGCTTCAATCTGATCCACTGCTACT
1 TCAATCCGA-CCACTACAACTTCAGGGGTATAAGATTTGTAGCTTCAATCTGCTTCACTGCAACT
* *
18229014 TCAGGGATATAGGATT
65 TCAGGGAGATAAGATT
18229030 TGTAGCTTCA
Statistics
Matches: 292, Mismatches: 64, Indels: 14
0.79 0.17 0.04
Matches are distributed among these distances:
93 6 0.02
94 281 0.96
95 5 0.02
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (93 bp):
TCAATCCGACCACTACAACTTCAGGGGTATAAGATTTGTAGCTTCAATCTGCTTCACTGCAACTT
CAGGGAGATAAGATTCGCTATAGTAGAA
Found at i:18228998 original size:232 final size:229
Alignment explanation
Indices: 18228760--18229350 Score: 652
Period size: 232 Copynumber: 2.5 Consensus size: 229
18228750 CTATGGTAGA
* * * *
18228760 TTCAATCCGACCTACTGCAACTTTAGGGGTATAGGATTTGTAGCTTCAATC-TGCTCCACTACGA
1 TTCAATCCGACC-ACTGCAACTTCAGGGATATAGGATTTGTAGCTTC-ATCTTGCTCCACTGCAA
* * * * * *
18228824 CTTCAGAGGTATAGGATTTGTTGTTGTAGTTTCAATCCAACCCATTACAACTTCAGGGATATAAT
64 CTTCAGAGG-ATAAGATTTGCTATCGTAGTTTCAATCCAACCCATTGCAACTTCAGGG-TATAAG
* * * **
18228889 ATTTGTAGCTTCAATC-TGCTTCATTGCATCTTCAGGGAGATAAGATTCGTTATAGTAGAATT-A
127 ATTTGTAGCTTC-ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATAGTAG-ATTCA
*
18228952 ATCCGACCCACTACAACTTCAGGGGTATAAAAATTATAGC
190 ATCCGACCCACTACAACTTCAGGGGTATAAAAATTATAAC
* * * *
18228992 TTCAATCTGATCCACTGCTACTTCAGGGATATAGGATTTGTAGCTTCATCTTACTCCATTGCAAC
1 TTCAATCCGA-CCACTGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTCCACTGCAAC
* * **
18229057 TTCATG-GAGATAAGATTTGCTATCGTAGTTTCATTCCAACCCACTGCAACTTTGGGGGTATAAG
65 TTCA-GAG-GATAAGATTTGCTATCGTAGTTTCAATCCAACCCATTGCAAC-TTCAGGGTATAAG
* * * * *
18229121 ATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCCTTGTAGTTTCATT
127 ATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATAGTAGATTCAAT
** *
18229186 CCGACCCACTACAACTTCAGGGGTATATGAATTGTAAC
192 CCGACCCACTACAACTTCAGGGGTATAAAAATTATAAC
* * * * *
18229224 TTTAATTCAATCAACTGCGACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTCCACTGCAAC
1 TTCAATCCGA-CCACTGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTCCACTGCAAC
* * * *
18229289 TTCA-AGGAGATAAGATTTGCTATGGTAGGTTCTATCCAACACATTGCAACTTCAAGGGTATA
65 TTCAGA-G-GATAAGATTTGCTATCGTAGTTTCAATCCAACCCATTGCAACTTC-AGGGTATA
18229351 GGATCTATGG
Statistics
Matches: 301, Mismatches: 48, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
231 10 0.03
232 282 0.94
233 9 0.03
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (229 bp):
TTCAATCCGACCACTGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACT
TCAGAGGATAAGATTTGCTATCGTAGTTTCAATCCAACCCATTGCAACTTCAGGGTATAAGATTT
GTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATAGTAGATTCAATCCGA
CCCACTACAACTTCAGGGGTATAAAAATTATAAC
Found at i:18229024 original size:138 final size:138
Alignment explanation
Indices: 18228871--18229169 Score: 361
Period size: 138 Copynumber: 2.2 Consensus size: 138
18228861 CAACCCATTA
* * * *
18228871 CAACTTCAGGGATATAATATTTGTAGCTTCAATC-TGCTTCATTGCATCTTCAGGGAGATAAGAT
1 CAACTTCAGGGATATAAGATTTGTAGCTTC-ATCTTACTCCATTGCAACTTCAGGGAGATAAGAT
* *
18228935 TCGTTATAGTAGAATT-AATCCGACCCACTACAACTTCAGGGGTATAAAAATTATAGCTTCAATC
65 TCGCTATAGTAG-ATTCAATCCAACCCACTACAACTTCAGGGGTATAAAAATTATAGCTTC-ATC
18228999 -TGATCCACTG
128 TTGATCCACTG
* * *
18229009 CTACTTCAGGGATATAGGATTTGTAGCTTCATCTTACTCCATTGCAACTTCATGGAGATAAGATT
1 CAACTTCAGGGATATAAGATTTGTAGCTTCATCTTACTCCATTGCAACTTCAGGGAGATAAGATT
* * * * * ** * * *
18229074 TGCTATCGTAGTTTCATTCCAACCCACTGCAACTTTGGGGGTATAAGATTTGTAGCTTCATCTTG
66 CGCTATAGTAGATTCAATCCAACCCACTACAACTTCAGGGGTATAAAAATTATAGCTTCATCTTG
*
18229139 CTCCACTG
131 ATCCACTG
*
18229147 CAACTTCAGGGAGATAAGATTTG
1 CAACTTCAGGGATATAAGATTTG
18229170 CCCTTGTAGT
Statistics
Matches: 135, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
137 8 0.06
138 127 0.94
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (138 bp):
CAACTTCAGGGATATAAGATTTGTAGCTTCATCTTACTCCATTGCAACTTCAGGGAGATAAGATT
CGCTATAGTAGATTCAATCCAACCCACTACAACTTCAGGGGTATAAAAATTATAGCTTCATCTTG
ATCCACTG
Found at i:18229164 original size:94 final size:94
Alignment explanation
Indices: 18229003--18229221 Score: 303
Period size: 94 Copynumber: 2.3 Consensus size: 94
18228993 TCAATCTGAT
* * * * *
18229003 CCACTGCTACTTCAGGGATATAGGATTTGTAGCTTCATCTTACTCCATTGCAACTTCATGGAGAT
1 CCACTGCAACTTCAGGGGTATAAGATTTGTAGCTTCATCTTACTCCACTGCAACTTCAGGGAGAT
*
18229068 AAGATTTGCTATCGTAGTTTCATTCCAAC
66 AAGATTTGCCATCGTAGTTTCATTCCAAC
** *
18229097 CCACTGCAACTTTGGGGGTATAAGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGAT
1 CCACTGCAACTTCAGGGGTATAAGATTTGTAGCTTCATCTTACTCCACTGCAACTTCAGGGAGAT
* * *
18229162 AAGATTTGCCCTTGTAGTTTCATTCCGAC
66 AAGATTTGCCATCGTAGTTTCATTCCAAC
* * *
18229191 CCACTACAACTTCAGGGGTATATGAATTGTA
1 CCACTGCAACTTCAGGGGTATAAGATTTGTA
18229222 ACTTTAATTC
Statistics
Matches: 108, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
94 108 1.00
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.33
Consensus pattern (94 bp):
CCACTGCAACTTCAGGGGTATAAGATTTGTAGCTTCATCTTACTCCACTGCAACTTCAGGGAGAT
AAGATTTGCCATCGTAGTTTCATTCCAAC
Found at i:18229241 original size:94 final size:94
Alignment explanation
Indices: 18229011--18229263 Score: 249
Period size: 94 Copynumber: 2.7 Consensus size: 94
18229001 ATCCACTGCT
* * * * * * * * *
18229011 ACTTCAGGGATATAGGATTTGTAGCTTCATCTTACTCCATTGCAACTTCATGGAGATAAGATTTG
1 ACTTCAGGGGTATAAGAATTGTAACTTCATATTGCTCAACTGCAACTTCAGGGAGATAAGATTTG
* *
18229076 CTATCGTAGTTTCATTCCAACCCACTGCA
66 CCATCGTAGTTTCATTCCAACCCACTACA
** * * * *
18229105 ACTTTGGGGGTATAAGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
1 ACTTCAGGGGTATAAGAATTGTAACTTCATATTGCTCAACTGCAACTTCAGGGAGATAAGATTTG
* * *
18229170 CCCTTGTAGTTTCATTCCGACCCACTACA
66 CCATCGTAGTTTCATTCCAACCCACTACA
* * * * *
18229199 ACTTCAGGGGTATATGAATTGTAACTTTA-ATT-CAATCAACTGCGACTTCAGGGATATAGGATT
1 ACTTCAGGGGTATAAGAATTGTAACTTCATATTGC--TCAACTGCAACTTCAGGGAGATAAGATT
18229262 TG
64 TG
18229264 TAGCTTCATC
Statistics
Matches: 134, Mismatches: 23, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
92 1 0.01
93 2 0.01
94 131 0.98
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (94 bp):
ACTTCAGGGGTATAAGAATTGTAACTTCATATTGCTCAACTGCAACTTCAGGGAGATAAGATTTG
CCATCGTAGTTTCATTCCAACCCACTACA
Found at i:18229794 original size:24 final size:24
Alignment explanation
Indices: 18229767--18229814 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
18229757 GAGCAACATG
18229767 TAGAAATCCTTTTAGTTTAATATT
1 TAGAAATCCTTTTAGTTTAATATT
18229791 TAGAAATCCTTTTAGTTTAATATT
1 TAGAAATCCTTTTAGTTTAATATT
18229815 GTTAGTCCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.50
Consensus pattern (24 bp):
TAGAAATCCTTTTAGTTTAATATT
Found at i:18232040 original size:108 final size:110
Alignment explanation
Indices: 18231896--18232096 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
18231886 ATCCTTTTGA
* *
18231896 AACTTACCATTGCCATGTATTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTATTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
*
18231959 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTAGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * * * *
18232004 AACTTATCAATGCCCTGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTATTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
18232069 TGCCATGCCTTAGCATGGTCTTACATGG
66 TGCCATGCCTTAGCATGGTCTTACATGG
18232097 TATCCTTAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 1 0.01
108 47 0.57
109 7 0.09
110 27 0.33
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTATTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTAGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:18232051 original size:55 final size:52
Alignment explanation
Indices: 18231849--18232103 Score: 211
Period size: 55 Copynumber: 4.8 Consensus size: 52
18231839 ACGCGGGTAC
* * * *
18231849 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACAT-GTATCCTTGCCTTATG-AA
* *
18231898 CTTACCATTGCCATGTATTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACAT-GTATCCTTGCCTTATGAA
* * * *
18231951 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACAT-GTATCC-TTGCCTTAT-G-AA
* * *
18232006 CTTATCAATGCCCTGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATG-TATCCTTGCCTTATG-AA
*
18232059 CCTTACCAATTGCCATGCCTT-AGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGTCTTGA-CATGGTCTTACAT-GTATCCTT
18232104 AAACCCTAAT
Statistics
Matches: 170, Mismatches: 22, Indels: 22
0.79 0.10 0.10
Matches are distributed among these distances:
49 37 0.22
50 1 0.01
52 2 0.01
53 48 0.28
54 12 0.07
55 67 0.39
56 3 0.02
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (52 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGTATCCTTGCCTTATGAA
Found at i:18241433 original size:15 final size:15
Alignment explanation
Indices: 18241413--18241481 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
18241403 ATATCTTGGG
18241413 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
18241428 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
18241443 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
18241458 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
18241473 TTTCTTTAT
1 TTTCTTTAT
18241482 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:18241482 original size:30 final size:30
Alignment explanation
Indices: 18241404--18241491 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
18241394 CATAGTATCA
* * * *
18241404 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
18241434 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
18241464 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
18241492 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:18246598 original size:27 final size:27
Alignment explanation
Indices: 18246560--18246618 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
18246550 CTCAAATCGA
18246560 AGGTGGTTCTTGACGACGGCTCTTAAC
1 AGGTGGTTCTTGACGACGGCTCTTAAC
18246587 AGGTGGTTCTTGACGACGGCTCTTAAC
1 AGGTGGTTCTTGACGACGGCTCTTAAC
18246614 AGGTG
1 AGGTG
18246619 AAAATTTCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.19, C:0.20, G:0.32, T:0.29
Consensus pattern (27 bp):
AGGTGGTTCTTGACGACGGCTCTTAAC
Found at i:18248176 original size:18 final size:18
Alignment explanation
Indices: 18248155--18248189 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18248145 AAATCATTAA
18248155 TATTTATAATTTATTTAT
1 TATTTATAATTTATTTAT
* *
18248173 TATTTTTATTTTATTTA
1 TATTTATAATTTATTTA
18248190 ATAATAAGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TATTTATAATTTATTTAT
Found at i:18262678 original size:43 final size:43
Alignment explanation
Indices: 18262630--18262776 Score: 163
Period size: 43 Copynumber: 3.4 Consensus size: 43
18262620 TACGAGATGT
*
18262630 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
* * *
18262673 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAAT-C
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TATTGA
* * ** * *
18262716 GATTTCATGTAAGACCCTGTCCAGGACAGTGGCATCG-ATATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT-TGA
*
18262759 GATAACATGTAAGACCAT
1 GATTACATGTAAGACCAT
18262777 ATATGGGATA
Statistics
Matches: 86, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 81 0.94
44 3 0.03
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
Found at i:18262784 original size:86 final size:85
Alignment explanation
Indices: 18262630--18262792 Score: 193
Period size: 86 Copynumber: 1.9 Consensus size: 85
18262620 TACGAGATGT
** * * * * * *
18262630 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGAGATTACGTGTAAGACCATGTCT
1 GATTACATGTAAGACCATGTCCAGGACAGTGGCATCGTATTGAGATAACATGTAAGACCATATAT
18262695 GGGACATTGGCATCGTTAATC
66 GGGACA-TGGCATCGTTAATC
* * *
18262716 GATTTCATGTAAGACCCTGTCCAGGACAGTGGCATCG-ATATGTGATAACATGTAAGACCATATA
1 GATTACATGTAAGACCATGTCCAGGACAGTGGCATCGTAT-TGAGATAACATGTAAGACCATATA
*
18262780 TGGGATATGGCAT
65 TGGGACATGGCAT
18262793 TGTATGAGCT
Statistics
Matches: 64, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
85 8 0.12
86 56 0.88
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (85 bp):
GATTACATGTAAGACCATGTCCAGGACAGTGGCATCGTATTGAGATAACATGTAAGACCATATAT
GGGACATGGCATCGTTAATC
Found at i:18266268 original size:30 final size:30
Alignment explanation
Indices: 18266223--18266288 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
18266213 CAACAGAATT
* * ** *
18266223 TGATGGTTGCTGATTGTTTGTAACAAGATG
1 TGATGGCTGCCGATTGCGTGTAACAAGATA
18266253 TGATGGCTGCCGATTGCGTGTAACAAGATA
1 TGATGGCTGCCGATTGCGTGTAACAAGATA
18266283 TGATGG
1 TGATGG
18266289 TCATTGTTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.11, G:0.32, T:0.33
Consensus pattern (30 bp):
TGATGGCTGCCGATTGCGTGTAACAAGATA
Found at i:18271124 original size:18 final size:18
Alignment explanation
Indices: 18271101--18271139 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
18271091 TTCAAACCTG
18271101 TCACGGGTTCTGCAATTT
1 TCACGGGTTCTGCAATTT
18271119 TCACGGGTTCTGCAATTT
1 TCACGGGTTCTGCAATTT
18271137 TCA
1 TCA
18271140 TGTTTAGGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (18 bp):
TCACGGGTTCTGCAATTT
Found at i:18274235 original size:19 final size:20
Alignment explanation
Indices: 18274194--18274235 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
18274184 ATATATGATT
* *
18274194 TTTTTCTATATTATTCATCA
1 TTTTTCTATATTATTAATAA
*
18274214 TTTTT-TATATTTTTAATAA
1 TTTTTCTATATTATTAATAA
18274233 TTT
1 TTT
18274236 ATATATAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTTCTATATTATTAATAA
Found at i:18274731 original size:23 final size:24
Alignment explanation
Indices: 18274705--18274758 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
18274695 ATATTTGTTA
*
18274705 TTAAAACAT-TACTATAAATATT-T
1 TTAAAA-ATATACTAAAAATATTAT
* *
18274728 TTAATAATATATTAAAAATATTAT
1 TTAAAAATATACTAAAAATATTAT
18274752 TTAAAAA
1 TTAAAAA
18274759 CTAAATTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
22 2 0.08
23 16 0.64
24 7 0.28
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (24 bp):
TTAAAAATATACTAAAAATATTAT
Found at i:18281927 original size:46 final size:45
Alignment explanation
Indices: 18281875--18282078 Score: 197
Period size: 46 Copynumber: 4.5 Consensus size: 45
18281865 GTCGATGCCG
* * *
18281875 TGTCCCAGACAGGTCTTACACTGA-CACATGTAACCGT-GCTGACGCA
1 TGTCCCAGACATGTCTTACACTGAGCACATCT---CGTAGCCGACGCA
18281921 TGTCCCAGACATGTCTTACACT-AGCACATCTCGTAGCCGACGCA
1 TGTCCCAGACATGTCTTACACTGAGCACATCTCGTAGCCGACGCA
* *
18281965 TGTCCCAGACATGTCTGACACTG-GCTATCATCTCG-AGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTGAGC-A-CATCTCGTA-GCCGACGCA
* * * *
18282011 TGTCCCAGACATGTCTTACACTG-GCTC-TCATACTGTGGCTGATGCA
1 TGTCCCAGACATGTCTTACACTGAGCACATC-T-C-GTAGCCGACGCA
18282057 TGTCCCAGACATGTCTTACACT
1 TGTCCCAGACATGTCTTACACT
18282079 AGCCCTCGTC
Statistics
Matches: 139, Mismatches: 9, Indels: 20
0.83 0.05 0.12
Matches are distributed among these distances:
43 5 0.04
44 33 0.24
45 4 0.03
46 97 0.70
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (45 bp):
TGTCCCAGACATGTCTTACACTGAGCACATCTCGTAGCCGACGCA
Found at i:18282098 original size:92 final size:91
Alignment explanation
Indices: 18281918--18282134 Score: 249
Period size: 92 Copynumber: 2.4 Consensus size: 91
18281908 CCGTGCTGAC
*
18281918 GCATGTCCCAGACATGTCTTACACTAG-CACATCTCGTAGCCGACGCATGTCCCAGACATGTCTG
1 GCATGTCCCAGACATGTCTTACACTGGCCACATCTCGTAGCCGACGCATGTCCCAGACATGTCTG
* * *
18281982 ACACTGGCTATCATCTCGAGGCCGAT
66 ACACTAGCCATCATCTCAAGGCCGAT
* * * *
18282008 GCATGTCCCAGACATGTCTTACACTGGCTCTCATACT-GTGGCTGATGCATGTCCCAGACATGTC
1 GCATGTCCCAGACATGTCTTACACTGGC-CACAT-CTCGTAGCCGACGCATGTCCCAGACATGTC
* * * *
18282072 TTACACTAGCCCTCGTCTCAATGCCGAT
64 TGACACTAGCCATCATCTCAAGGCCGAT
* *
18282100 GCCATGTCTCATACATGGTCTTACACTGGCACACA
1 G-CATGTCCCAGACAT-GTCTTACACTGGC-CACA
18282135 AATCTCATGT
Statistics
Matches: 106, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
90 26 0.25
92 50 0.47
93 14 0.13
94 16 0.15
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.26
Consensus pattern (91 bp):
GCATGTCCCAGACATGTCTTACACTGGCCACATCTCGTAGCCGACGCATGTCCCAGACATGTCTG
ACACTAGCCATCATCTCAAGGCCGAT
Found at i:18282101 original size:46 final size:44
Alignment explanation
Indices: 18281918--18282126 Score: 190
Period size: 46 Copynumber: 4.6 Consensus size: 44
18281908 CCGTGCTGAC
*
18281918 GCATGTCCCAGACATGTCTTACACTAGCACATC-TCGTA-GCCGAC
1 GCATGTCCCAGACATGTCTTACACTAGC-CATCATC-TATGCCGAT
* * * *
18281962 GCATGTCCCAGACATGTCTGACACTGGCTATCATCTCGAGGCCGAT
1 GCATGTCCCAGACATGTCTTACACTAGCCATCATCT--ATGCCGAT
* * *
18282008 GCATGTCCCAGACATGTCTTACACTGGCTC-TCATACTGTGGCTGAT
1 GCATGTCCCAGACATGTCTTACACTAGC-CATCAT-CTAT-GCCGAT
* *
18282054 GCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAATGCCGAT
1 GCATGTCCCAGACATGTCTTACACTAGCCATCATCT--ATGCCGAT
* *
18282100 GCCATGTCTCATACATGGTCTTACACT
1 G-CATGTCCCAGACAT-GTCTTACACT
18282127 GGCACACAAA
Statistics
Matches: 138, Mismatches: 15, Indels: 20
0.80 0.09 0.12
Matches are distributed among these distances:
43 4 0.03
44 28 0.20
45 4 0.03
46 77 0.56
47 15 0.11
48 10 0.07
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.27
Consensus pattern (44 bp):
GCATGTCCCAGACATGTCTTACACTAGCCATCATCTATGCCGAT
Found at i:18287268 original size:96 final size:97
Alignment explanation
Indices: 18287158--18287334 Score: 252
Period size: 96 Copynumber: 1.8 Consensus size: 97
18287148 AAATTTTAGG
* ** ** *
18287158 GTTTTAAGGAAAAAAATTAAATAAATTAGGGTTTATTGTTTGTTAATTAAATTAATTACT-AATT
1 GTTTTAAGGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTA-TAAATT
18287222 TT-AAAAAATTAGATTATGGTTTAGTGTTTATC
65 TTAAAAAAATTAGATTATGGTTTAGTGTTTATC
*
18287254 GTTTTCAAGG-AAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATT
1 GTTTT-AAGGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAAATT
18287318 TTAAAAAAATTAGATTA
65 TTAAAAAAATTAGATTA
18287335 AGATTTTAGG
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
95 1 0.01
96 52 0.73
97 18 0.25
ACGTcount: A:0.42, C:0.03, G:0.14, T:0.41
Consensus pattern (97 bp):
GTTTTAAGGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTT
TAAAAAAATTAGATTATGGTTTAGTGTTTATC
Found at i:18287661 original size:126 final size:126
Alignment explanation
Indices: 18287444--18287980 Score: 878
Period size: 126 Copynumber: 4.3 Consensus size: 126
18287434 AAAAGCTTCT
* * *
18287444 ACGTGGACGTTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAAGACATGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACATGTCTGCACAA
*
18287509 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
* * **
18287570 ACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTGTCTGTGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACATGTCTGCACAA
* * *
18287635 ATAGTGTAAAAAACGATTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTTCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
18287696 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACATGTCTGCACAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACATGTCTGCACAA
* *
18287761 ATAGTGGT-AAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAATTACTGGAAGAAGCTCCC
66 ATAGT-GTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * * *
18287822 ACGTGGATGCTCTTTTGCTACAATGGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCATAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACATGTCTGCACAA
18287887 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
* *
18287948 ACGTGGACGCTCTTTTGCTACAGTGGTTTCTGA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGA
18287981 TATAACTTGG
Statistics
Matches: 382, Mismatches: 27, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
125 2 0.01
126 378 0.99
127 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (126 bp):
ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACATGTCTGCACAA
ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
Found at i:18291330 original size:116 final size:116
Alignment explanation
Indices: 18290995--18291606 Score: 1050
Period size: 116 Copynumber: 5.3 Consensus size: 116
18290985 TTTATATTTT
* * *
18290995 ATTACATGAAATAATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
** * *
18291060 AAAATATAAAAGTAAATTATTATTACTTTATTTAAAACAACCTTTTATATT
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
* * * *
18291111 ATCACATGAAATAATATAAAAATATTCAAAATGTTG---TCTTTAAAATAATTTCTATTTCATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
18291173 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
18291224 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
18291289 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
18291340 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAGTTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
* *
18291405 AAAATATAAAATTAAATTATAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
18291456 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
*
18291521 AAAATATAAAAGTAAATTACAGTTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
* *
18291572 ATTATATGAAATAATATAAAAAGATTCAAAATGTT
1 ATTACATGAAATAATATAAAAATATTCAAAATGTT
18291607 TGTACAAATA
Statistics
Matches: 470, Mismatches: 23, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
113 104 0.22
116 366 0.78
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (116 bp):
ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
Found at i:18291437 original size:54 final size:53
Alignment explanation
Indices: 18291378--18291557 Score: 139
Period size: 54 Copynumber: 3.2 Consensus size: 53
18291368 AAATGTTGCC
* *
18291378 TTATTTAAAATAGTTTCCATTTTATTAAAAATATAAAATTAAATTATAATTACT
1 TTATTTAAAATAATTTCCATTTTATTAAAAATATAAAA-TAAATTAAAATTACT
* * * * * *
18291432 TTATTTAAAACAACCTTT-TATCTAATTACATGAAATAATATAAAA-ATATTCAAAATGTTGCC
1 TTATTTAAAATAA--TTTCCAT-T--TT--ATTAAA-AATATAAAATAAATT-AAAA--TTACT
* *
18291494 TTATTTAAAATAATTTCCATTTTATTAAAAATATAAAAGTAAATTACAGTTACT
1 TTATTTAAAATAATTTCCATTTTATTAAAAATATAAAA-TAAATTAAAATTACT
18291548 TTATTTAAAA
1 TTATTTAAAA
18291558 CAACCTTTTA
Statistics
Matches: 96, Mismatches: 16, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
54 24 0.25
55 11 0.11
56 11 0.11
57 4 0.04
58 4 0.04
59 4 0.04
60 12 0.12
61 11 0.11
62 15 0.16
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.42
Consensus pattern (53 bp):
TTATTTAAAATAATTTCCATTTTATTAAAAATATAAAATAAATTAAAATTACT
Found at i:18292642 original size:7 final size:7
Alignment explanation
Indices: 18292632--18292657 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
18292622 GTTAAATAAA
18292632 AAATACT
1 AAATACT
18292639 AAATACT
1 AAATACT
18292646 AAATACT
1 AAATACT
18292653 AAATA
1 AAATA
18292658 TGAATCCACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.27
Consensus pattern (7 bp):
AAATACT
Found at i:18292643 original size:14 final size:14
Alignment explanation
Indices: 18292624--18292657 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
18292614 AAATATTAGT
18292624 TAAATAAAAAATAC
1 TAAATAAAAAATAC
**
18292638 TAAATACTAAATAC
1 TAAATAAAAAATAC
18292652 TAAATA
1 TAAATA
18292658 TGAATCCACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAATAAAAAATAC
Found at i:18293781 original size:15 final size:15
Alignment explanation
Indices: 18293761--18293792 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
18293751 TTTTTATTTT
*
18293761 AAAAAATAAATTTAG
1 AAAAAATAAAATTAG
18293776 AAAAAATAAAATTAG
1 AAAAAATAAAATTAG
18293791 AA
1 AA
18293793 CTTTTTTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (15 bp):
AAAAAATAAAATTAG
Found at i:18293830 original size:22 final size:22
Alignment explanation
Indices: 18293805--18293867 Score: 67
Period size: 20 Copynumber: 3.0 Consensus size: 22
18293795 TTTTTGAAAA
**
18293805 AATTAAAGAGAGTTTTGAGAGG
1 AATTAAAGAGAAATTTGAGAGG
*
18293827 AATTTAAGAGAAATTTGAGA-G
1 AATTAAAGAGAAATTTGAGAGG
**
18293848 -ATTTGAGAGAAATTTGAGAG
1 AATTAAAGAGAAATTTGAGAG
18293868 AATATTGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 18 0.50
21 1 0.03
22 17 0.47
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (22 bp):
AATTAAAGAGAAATTTGAGAGG
Found at i:18293851 original size:20 final size:20
Alignment explanation
Indices: 18293818--18293868 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
18293808 TAAAGAGAGT
18293818 TTTGAGAGGAATTTAAGAGAAA
1 TTTGAGA-G-ATTTAAGAGAAA
*
18293840 TTTGAGAGATTTGAGAGAAA
1 TTTGAGAGATTTAAGAGAAA
18293860 TTTGAGAGA
1 TTTGAGAGA
18293869 ATATTGAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 20 0.71
21 1 0.04
22 7 0.25
ACGTcount: A:0.41, C:0.00, G:0.29, T:0.29
Consensus pattern (20 bp):
TTTGAGAGATTTAAGAGAAA
Found at i:18293881 original size:31 final size:31
Alignment explanation
Indices: 18293818--18293881 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
18293808 TAAAGAGAGT
* *
18293818 TTTGAGAGGAATTTAAGAGAAATTTGAGAGA
1 TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
*
18293849 TTTGAGAGAAATTTGAGAG-AATATTGAAAGA
1 TTTGAGAGAAATTTAAGAGAAAT-TTGAAAGA
18293880 TT
1 TT
18293882 GAAGATTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 3 0.10
31 26 0.90
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.31
Consensus pattern (31 bp):
TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
Found at i:18301752 original size:16 final size:16
Alignment explanation
Indices: 18301731--18301763 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
18301721 GCACAGTAAG
*
18301731 CAAAGTGCGAGCCTGT
1 CAAAGTGAGAGCCTGT
18301747 CAAAGTGAGAGCCTGT
1 CAAAGTGAGAGCCTGT
18301763 C
1 C
18301764 GAATTGCAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.24, G:0.30, T:0.18
Consensus pattern (16 bp):
CAAAGTGAGAGCCTGT
Found at i:18303726 original size:20 final size:21
Alignment explanation
Indices: 18303701--18303742 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
18303691 AATTTTAGGG
18303701 TTATTT-GATTTTTTTATTTT
1 TTATTTAGATTTTTTTATTTT
*
18303721 TTATTTATATTTTTTTATTTT
1 TTATTTAGATTTTTTTATTTT
18303742 T
1 T
18303743 AAATATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (21 bp):
TTATTTAGATTTTTTTATTTT
Found at i:18303743 original size:20 final size:21
Alignment explanation
Indices: 18303708--18303754 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
18303698 GGGTTATTTG
**
18303708 ATTTTTTTATTTTTTATTTAT
1 ATTTTTTTATTTTTTAAATAT
18303729 ATTTTTTTA-TTTTTAAATAT
1 ATTTTTTTATTTTTTAAATAT
18303749 ATTTTT
1 ATTTTT
18303755 ATCAAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (21 bp):
ATTTTTTTATTTTTTAAATAT
Found at i:18303754 original size:21 final size:21
Alignment explanation
Indices: 18303708--18303754 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
18303698 GGGTTATTTG
* *
18303708 ATTTTTTTATTTTTTATTTAT
1 ATTTTTTTATTTTTAATATAT
18303729 ATTTTTTTATTTTTAA-ATAT
1 ATTTTTTTATTTTTAATATAT
18303749 ATTTTT
1 ATTTTT
18303755 ATCAAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (21 bp):
ATTTTTTTATTTTTAATATAT
Found at i:18304327 original size:30 final size:31
Alignment explanation
Indices: 18304280--18304337 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
18304270 TGTAAAGAAA
*
18304280 TTTTTTTATTTTATATGTTAATTTTTTTCCT
1 TTTTTTTATCTTATATGTTAATTTTTTTCCT
**
18304311 TTTTTTTATCTT-TATGTTTTTTTTTTT
1 TTTTTTTATCTTATATGTTAATTTTTTT
18304338 GTTTCTTACT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 13 0.54
31 11 0.46
ACGTcount: A:0.12, C:0.05, G:0.03, T:0.79
Consensus pattern (31 bp):
TTTTTTTATCTTATATGTTAATTTTTTTCCT
Found at i:18304790 original size:3 final size:3
Alignment explanation
Indices: 18304782--18304813 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
18304772 TTTTTGTAAT
18304782 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
18304814 TATATTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:18306873 original size:28 final size:28
Alignment explanation
Indices: 18306803--18306883 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 28
18306793 TTGTTCTATT
* * * *
18306803 TAAGAACTCTGGTGCTTTTCTATTCTGA
1 TAAGCACTATGGTGTTTTTCTGTTCTGA
**
18306831 TAAGCACTACAGTGTTTTTCTGTTCTGA
1 TAAGCACTATGGTGTTTTTCTGTTCTGA
*
18306859 TAAGCAC-ATTGGTGTTGTTCTGTTC
1 TAAGCACTA-TGGTGTTTTTCTGTTC
18306884 CGTTAACACA
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
27 1 0.02
28 42 0.98
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (28 bp):
TAAGCACTATGGTGTTTTTCTGTTCTGA
Found at i:18306900 original size:28 final size:28
Alignment explanation
Indices: 18306820--18306900 Score: 67
Period size: 28 Copynumber: 2.9 Consensus size: 28
18306810 TCTGGTGCTT
* * * *
18306820 TTCTATTCTGATAAGCAC-TACAGTGTTT
1 TTCTGTTCCGATAAGCACAT-CGGTGTTG
* *
18306848 TTCTGTTCTGATAAGCACATTGGTGTTG
1 TTCTGTTCCGATAAGCACATCGGTGTTG
*
18306876 TTCTGTTCCGTTAA-CACACTCGGTG
1 TTCTGTTCCGATAAGCACA-TCGGTG
18306901 CCCTTTGTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
27 4 0.09
28 39 0.89
29 1 0.02
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.41
Consensus pattern (28 bp):
TTCTGTTCCGATAAGCACATCGGTGTTG
Found at i:18313644 original size:27 final size:25
Alignment explanation
Indices: 18313614--18313671 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 25
18313604 TCAAATCTTC
*
18313614 AAGGTGGAGATTGTTGAAAAGTCAAA
1 AAGGTGGA-AGTGTTGAAAAGTCAAA
18313640 TAAGGT--AAGTGTTGAAAAGTCAAA
1 -AAGGTGGAAGTGTTGAAAAGTCAAA
18313664 AATGGTGG
1 AA-GGTGG
18313672 GAGGCGCAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
23 2 0.07
24 19 0.70
25 1 0.04
27 5 0.19
ACGTcount: A:0.41, C:0.03, G:0.31, T:0.24
Consensus pattern (25 bp):
AAGGTGGAAGTGTTGAAAAGTCAAA
Found at i:18323374 original size:40 final size:40
Alignment explanation
Indices: 18323330--18323461 Score: 183
Period size: 40 Copynumber: 3.3 Consensus size: 40
18323320 AAAATATTAT
** **
18323330 TGAATGCACATATGTGCCATTGTTTGTACTTCGGTACTTC
1 TGAATGCACATATGTGCCCCTGTTTGTACTTCGGTACCCC
* *
18323370 TGAATGCACATATGTGCCCCTGATTATACTTCGGTACCCC
1 TGAATGCACATATGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
18323410 TGAATACACATACGTGCCCCTATTTGTACTTCGGTACCCC
1 TGAATGCACATATGTGCCCCTGTTTGTACTTCGGTACCCC
18323450 TGAATGCACATA
1 TGAATGCACATA
18323462 CATGCTTTGA
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 80 1.00
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (40 bp):
TGAATGCACATATGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:18323409 original size:20 final size:20
Alignment explanation
Indices: 18323386--18323452 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 20
18323376 CACATATGTG
18323386 CCCCTGATTATACTTCGGTA
1 CCCCTGATTATACTTCGGTA
* * * *
18323406 CCCCTGAATACACATAC-GTG
1 CCCCTGATTATAC-TTCGGTA
*
18323426 CCCCT-ATTTGTACTTCGGTA
1 CCCCTGA-TTATACTTCGGTA
18323446 CCCCTGA
1 CCCCTGA
18323453 ATGCACATAC
Statistics
Matches: 34, Mismatches: 9, Indels: 7
0.68 0.18 0.14
Matches are distributed among these distances:
19 3 0.09
20 28 0.82
21 3 0.09
ACGTcount: A:0.21, C:0.34, G:0.15, T:0.30
Consensus pattern (20 bp):
CCCCTGATTATACTTCGGTA
Found at i:18324169 original size:17 final size:18
Alignment explanation
Indices: 18324136--18324170 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
18324126 GTAAAAATAT
*
18324136 ATAACCCAATTAGCCCAA
1 ATAACCCAATTACCCCAA
18324154 ATAACCC-ATTACCCCAA
1 ATAACCCAATTACCCCAA
18324171 GCCCAAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.43, C:0.37, G:0.03, T:0.17
Consensus pattern (18 bp):
ATAACCCAATTACCCCAA
Found at i:18328024 original size:31 final size:31
Alignment explanation
Indices: 18327986--18328049 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
18327976 CACTCCTTAT
18327986 ATGCTACCTCAACCATCTCCACATTTGGAAA
1 ATGCTACCTCAACCATCTCCACATTTGGAAA
18328017 ATGCTACCTCAACCATCTCCACATTTGGAAA
1 ATGCTACCTCAACCATCTCCACATTTGGAAA
18328048 AT
1 AT
18328050 TTTTGAACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.33, C:0.31, G:0.09, T:0.27
Consensus pattern (31 bp):
ATGCTACCTCAACCATCTCCACATTTGGAAA
Found at i:18337308 original size:22 final size:23
Alignment explanation
Indices: 18337268--18337320 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
18337258 GATTTAATTA
**
18337268 ATTTAGGGTTA-TTGTTTTTAGG
1 ATTTAGGGTTAGGGGTTTTTAGG
18337290 ATTTAGGGTTAGGGGTTTTTAGG
1 ATTTAGGGTTAGGGGTTTTTAGG
18337313 --TTAGGGTT
1 ATTTAGGGTT
18337321 TTTAGGGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 8 0.29
22 11 0.39
23 9 0.32
ACGTcount: A:0.17, C:0.00, G:0.34, T:0.49
Consensus pattern (23 bp):
ATTTAGGGTTAGGGGTTTTTAGG
Found at i:18337329 original size:15 final size:16
Alignment explanation
Indices: 18337291--18337329 Score: 64
Period size: 14 Copynumber: 2.6 Consensus size: 16
18337281 GTTTTTAGGA
18337291 TTTAGGGTTAGGGGTT
1 TTTAGGGTTAGGGGTT
18337307 TTTA-GGTTA-GGGTT
1 TTTAGGGTTAGGGGTT
18337321 TTTAGGGTT
1 TTTAGGGTT
18337330 TAGAATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.41
15 9 0.41
16 4 0.18
ACGTcount: A:0.13, C:0.00, G:0.38, T:0.49
Consensus pattern (16 bp):
TTTAGGGTTAGGGGTT
Found at i:18337447 original size:19 final size:19
Alignment explanation
Indices: 18337426--18337494 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
18337416 ATTAAGGGTA
18337426 TTAGGGTTAATTGATTTAA-
1 TTAGGGTTAATTGA-TTAAC
18337445 TTAGGG---ATTGATTAAC
1 TTAGGGTTAATTGATTAAC
*
18337461 TTAGGGTTAATTGATTAAT
1 TTAGGGTTAATTGATTAAC
18337480 TTAGGGTTAATTGAT
1 TTAGGGTTAATTGAT
18337495 ACATAATAGT
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
15 4 0.09
16 11 0.24
19 30 0.67
ACGTcount: A:0.30, C:0.01, G:0.23, T:0.45
Consensus pattern (19 bp):
TTAGGGTTAATTGATTAAC
Found at i:18345721 original size:7 final size:7
Alignment explanation
Indices: 18345710--18345749 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
18345700 TTATACACAT
*
18345710 AATACTT
1 AATACTA
18345717 AATACTA
1 AATACTA
18345724 AATACTA
1 AATACTA
*
18345731 AATATTA
1 AATACTA
18345738 AATACTA
1 AATACTA
18345745 AATAC
1 AATAC
18345750 GAAACGACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (7 bp):
AATACTA
Found at i:18346783 original size:48 final size:46
Alignment explanation
Indices: 18346728--18346862 Score: 155
Period size: 48 Copynumber: 2.8 Consensus size: 46
18346718 ATGCAAACAT
* *
18346728 CATAAATGAAAAAAAAATCAAGCAGTATTGAAATTTTAATTATAA-TTG
1 CATAAATGAAAAAAATATCAA-TAGTATTGAAA-TTTAATTA-AATTTG
* *
18346776 TATAAATGAATAAAATATCAAATAGTATTGCAAATTTAATTAAATTTG
1 CATAAATGAAAAAAATATC-AATAGTATTG-AAATTTAATTAAATTTG
*
18346824 CATAAATTAAAAAAATATCGAATAGTATTGAAAATTTAA
1 CATAAATGAAAAAAATATC-AATAGTATTG-AAATTTAA
18346863 AATTATCACT
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
47 2 0.03
48 68 0.91
49 5 0.07
ACGTcount: A:0.53, C:0.05, G:0.09, T:0.33
Consensus pattern (46 bp):
CATAAATGAAAAAAATATCAATAGTATTGAAATTTAATTAAATTTG
Found at i:18347015 original size:11 final size:11
Alignment explanation
Indices: 18346994--18347093 Score: 69
Period size: 11 Copynumber: 9.1 Consensus size: 11
18346984 AATTTTAAAC
*
18346994 AAAGAAATTTG
1 AAAGAATTTTG
*
18347005 ACAGAATTTTG
1 AAAGAATTTTG
*
18347016 ATAGAATTTTG
1 AAAGAATTTTG
18347027 AAAGAATTTTG
1 AAAGAATTTTG
*
18347038 AGAA-AA-TTTC
1 A-AAGAATTTTG
* *
18347048 AATGAAATTTG
1 AAAGAATTTTG
* *
18347059 ATAGATTTTTG
1 AAAGAATTTTG
* *
18347070 AAGGGAATATTG
1 AA-AGAATTTTG
*
18347082 AAAGAATGTTG
1 AAAGAATTTTG
18347093 A
1 A
18347094 GAATTATGAG
Statistics
Matches: 68, Mismatches: 17, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
9 1 0.01
10 6 0.09
11 51 0.75
12 10 0.15
ACGTcount: A:0.43, C:0.02, G:0.20, T:0.35
Consensus pattern (11 bp):
AAAGAATTTTG
Found at i:18347973 original size:25 final size:24
Alignment explanation
Indices: 18347945--18347993 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
18347935 AAGAGAACGG
18347945 AAAATA-AAGAAAAAAAAAAGTTAAA
1 AAAATATAA-AAAAAAAAAA-TTAAA
*
18347970 AAAATATAAAAGAAAAAAATTAAA
1 AAAATATAAAAAAAAAAAATTAAA
18347994 TTGCTCAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 5 0.23
25 15 0.68
26 2 0.09
ACGTcount: A:0.80, C:0.00, G:0.06, T:0.14
Consensus pattern (24 bp):
AAAATATAAAAAAAAAAAATTAAA
Found at i:18351020 original size:26 final size:24
Alignment explanation
Indices: 18350990--18351092 Score: 95
Period size: 24 Copynumber: 4.2 Consensus size: 24
18350980 GGACTCACCA
18350990 CAGCTCGTATA-AGCTTATCGATATAT
1 CAGCTCGTA-AGAGCTTA-CGAT-TAT
*
18351016 CAGCTCGTAAGAGCTTACTATTAT
1 CAGCTCGTAAGAGCTTACGATTAT
* * *
18351040 CAGCTCGTAAGAGTTTACTATTTT
1 CAGCTCGTAAGAGCTTACGATTAT
* *
18351064 TAGCTCGTCAGAGCTTATCG-TT-T
1 CAGCTCGTAAGAGCTTA-CGATTAT
18351087 CAGCTC
1 CAGCTC
18351093 AATAGAGCTT
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
23 6 0.09
24 41 0.61
25 5 0.07
26 15 0.22
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.36
Consensus pattern (24 bp):
CAGCTCGTAAGAGCTTACGATTAT
Found at i:18351040 original size:24 final size:24
Alignment explanation
Indices: 18350990--18351080 Score: 103
Period size: 24 Copynumber: 3.7 Consensus size: 24
18350980 GGACTCACCA
*
18350990 CAGCTCGTATA-AGCTTATCGATATAT
1 CAGCTCGTA-AGAGCTTA-CTAT-TAT
18351016 CAGCTCGTAAGAGCTTACTATTAT
1 CAGCTCGTAAGAGCTTACTATTAT
* *
18351040 CAGCTCGTAAGAGTTTACTATTTT
1 CAGCTCGTAAGAGCTTACTATTAT
* *
18351064 TAGCTCGTCAGAGCTTA
1 CAGCTCGTAAGAGCTTA
18351081 TCGTTTCAGC
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
24 39 0.67
25 4 0.07
26 15 0.26
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (24 bp):
CAGCTCGTAAGAGCTTACTATTAT
Found at i:18351099 original size:23 final size:25
Alignment explanation
Indices: 18351073--18351118 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
18351063 TTAGCTCGTC
18351073 AGAGCTTATCGT-T-TCAGCTCAAT
1 AGAGCTTATCGTATATCAGCTCAAT
*
18351096 AGAGCTTATTGTATATCAGCTCA
1 AGAGCTTATCGTATATCAGCTCA
18351119 GGAGGAGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 11 0.55
24 1 0.05
25 8 0.40
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (25 bp):
AGAGCTTATCGTATATCAGCTCAAT
Found at i:18365536 original size:21 final size:21
Alignment explanation
Indices: 18365510--18365550 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
18365500 ATCTGCTCAA
* *
18365510 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
18365531 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
18365551 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:18368184 original size:11 final size:13
Alignment explanation
Indices: 18368154--18368189 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
18368144 TCAAATGGAG
18368154 AAGAGAGAAAACT
1 AAGAGAGAAAACT
18368167 AAGAGAGAAAACT
1 AAGAGAGAAAACT
18368180 AAGAGAGAAA
1 AAGAGAGAAA
18368190 GATTGGTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.64, C:0.06, G:0.25, T:0.06
Consensus pattern (13 bp):
AAGAGAGAAAACT
Found at i:18368958 original size:16 final size:17
Alignment explanation
Indices: 18368939--18368972 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
18368929 TATTTAATTG
18368939 TTAAAAATGTTAA-AAT
1 TTAAAAATGTTAATAAT
*
18368955 TTAATAATGTTAATAAT
1 TTAAAAATGTTAATAAT
18368972 T
1 T
18368973 ATATTTGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
TTAAAAATGTTAATAAT
Found at i:18369496 original size:22 final size:22
Alignment explanation
Indices: 18369471--18369514 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
18369461 TAGTCATATA
18369471 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
18369493 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
18369515 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:18369565 original size:13 final size:13
Alignment explanation
Indices: 18369549--18369573 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18369539 AATTATAAAT
18369549 TTTTAAATAATAA
1 TTTTAAATAATAA
18369562 TTTTAAATAATA
1 TTTTAAATAATA
18369574 TTATTCACAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTTAAATAATAA
Found at i:18370067 original size:20 final size:20
Alignment explanation
Indices: 18370042--18370145 Score: 82
Period size: 20 Copynumber: 5.2 Consensus size: 20
18370032 TATCAAAATA
18370042 TCTAAGGATTTACCAATATT
1 TCTAAGGATTTACCAATATT
* * * *
18370062 TTTAAGTATATACCAATATA
1 TCTAAGGATTTACCAATATT
* *
18370082 TCTAACGATTTATCAATATT
1 TCTAAGGATTTACCAATATT
* * * *
18370102 TCTAAGAACTAACCAATATA
1 TCTAAGGATTTACCAATATT
** * *
18370122 TCTAACAATTTGCCAAAATT
1 TCTAAGGATTTACCAATATT
18370142 TCTA
1 TCTA
18370146 TATATTTTTC
Statistics
Matches: 62, Mismatches: 22, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.40, C:0.16, G:0.06, T:0.38
Consensus pattern (20 bp):
TCTAAGGATTTACCAATATT
Found at i:18370092 original size:40 final size:40
Alignment explanation
Indices: 18370039--18370145 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
18370029 CTTTATCAAA
* * *
18370039 ATATCTAAGGATTTACCAATATTTTTAAGTA-TATACCAAT
1 ATATCTAACGATTTACCAATATTTCTAAGAACTA-ACCAAT
*
18370079 ATATCTAACGATTTATCAATATTTCTAAGAACTAACCAAT
1 ATATCTAACGATTTACCAATATTTCTAAGAACTAACCAAT
* * *
18370119 ATATCTAACAATTTGCCAAAATTTCTA
1 ATATCTAACGATTTACCAATATTTCTA
18370146 TATATTTTTC
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 56 0.97
41 2 0.03
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.37
Consensus pattern (40 bp):
ATATCTAACGATTTACCAATATTTCTAAGAACTAACCAAT
Found at i:18370243 original size:20 final size:20
Alignment explanation
Indices: 18370212--18370409 Score: 132
Period size: 20 Copynumber: 9.9 Consensus size: 20
18370202 TATCAAGTCT
18370212 TAACAA-TTACCAAAATTTC
1 TAACAATTTACCAAAATTTC
** * *
18370231 TATGATTTTACCAAAATATC
1 TAACAATTTACCAAAATTTC
18370251 TAACAATTTACCAAAATTTC
1 TAACAATTTACCAAAATTTC
** * *
18370271 TAAGGATTTACCAATATATC
1 TAACAATTTACCAAAATTTC
* * * *
18370291 TAATAAATTACCAATATTTT
1 TAACAATTTACCAAAATTTC
* * *
18370311 TGA-AGTTGTACCAAAATATC
1 TAACAATT-TACCAAAATTTC
18370331 TAACAATTT-CACAAAATTTC
1 TAACAATTTAC-CAAAATTTC
* * *
18370351 TATCGATTTACCAATATTTC
1 TAACAATTTACCAAAATTTC
** * ** *
18370371 TAAGGATTTATCATTATATC
1 TAACAATTTACCAAAATTTC
*
18370391 TAACAAATTACCAAAATTT
1 TAACAATTTACCAAAATTT
18370410 GTTGGAGATC
Statistics
Matches: 133, Mismatches: 41, Indels: 9
0.73 0.22 0.05
Matches are distributed among these distances:
19 6 0.05
20 123 0.92
21 4 0.03
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (20 bp):
TAACAATTTACCAAAATTTC
Found at i:18370267 original size:40 final size:39
Alignment explanation
Indices: 18370212--18370373 Score: 170
Period size: 40 Copynumber: 4.1 Consensus size: 39
18370202 TATCAAGTCT
18370212 TAACAA-TTACCAAAATTTCTATGATTTTACCAAAATATC
1 TAACAATTTACCAAAATTTCTATGA-TTTACCAAAATATC
* *
18370251 TAACAATTTACCAAAATTTCTAAGGATTTACCAATATATC
1 TAACAATTTACCAAAATTTCT-ATGATTTACCAAAATATC
* * *
18370291 TAATAAATTACCAATATTT-T-TGAAGTTGTACCAAAATATC
1 TAACAATTTACCAAAATTTCTATG-A-TT-TACCAAAATATC
* *
18370331 TAACAATTT-CACAAAATTTCTATCGATTTACCAATATTTC
1 TAACAATTTAC-CAAAATTTCTAT-GATTTACCAAAATATC
18370371 TAA
1 TAA
18370374 GGATTTATCA
Statistics
Matches: 102, Mismatches: 12, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
39 10 0.10
40 81 0.79
41 6 0.06
42 2 0.02
43 1 0.01
ACGTcount: A:0.42, C:0.17, G:0.04, T:0.37
Consensus pattern (39 bp):
TAACAATTTACCAAAATTTCTATGATTTACCAAAATATC
Found at i:18370403 original size:80 final size:79
Alignment explanation
Indices: 18370238--18370407 Score: 189
Period size: 80 Copynumber: 2.1 Consensus size: 79
18370228 TTCTATGATT
* *
18370238 TTACCAAAATATCTAACAATTTACCAAAATTTCTAAGGATTTACCAATATATCTAATAAATTACC
1 TTACCAAAATATCTAACAATTTACCAAAATTTCTAACGATTTACCAATATATCTAAGAAATTACC
* * * **
18370303 AATATTTTTGAAGT
66 AATATATCTAAAAA
* * * *
18370317 TGTACCAAAATATCTAACAATTT-CACAAAATTTCTATCGATTTACCAATATTTCTAAGGATTTA
1 T-TACCAAAATATCTAACAATTTAC-CAAAATTTCTAACGATTTACCAATATATCTAAGAAATTA
* *
18370381 TCATTATATCTAACAAA
64 CCAATATATCTAA-AAA
18370398 TTACCAAAAT
1 TTACCAAAAT
18370408 TTGTTGGAGA
Statistics
Matches: 75, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
79 2 0.03
80 71 0.95
81 2 0.03
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.36
Consensus pattern (79 bp):
TTACCAAAATATCTAACAATTTACCAAAATTTCTAACGATTTACCAATATATCTAAGAAATTACC
AATATATCTAAAAA
Found at i:18372280 original size:45 final size:47
Alignment explanation
Indices: 18372230--18372322 Score: 118
Period size: 45 Copynumber: 2.0 Consensus size: 47
18372220 TCTCTAAATT
* *
18372230 AGACACGTGCCTAAAATTTGACACG-A-CACCTTCAAACGGATTATC
1 AGACACATGCCTAAAATATGACACGAACCACCTTCAAACGGATTATC
* * *
18372275 AGACACATGCCTAACATATGACATGACACCACCTTCAACCGGATTATC
1 AGACACATGCCTAAAATATGACACGA-ACCACCTTCAAACGGATTATC
18372323 TGAAGAGTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
45 21 0.52
47 1 0.03
48 18 0.45
ACGTcount: A:0.35, C:0.29, G:0.14, T:0.22
Consensus pattern (47 bp):
AGACACATGCCTAAAATATGACACGAACCACCTTCAAACGGATTATC
Found at i:18372947 original size:25 final size:26
Alignment explanation
Indices: 18372892--18372947 Score: 64
Period size: 24 Copynumber: 2.2 Consensus size: 26
18372882 AAATATCCCT
*
18372892 AGAATAATCAGAGTCTAATTGAGAAA
1 AGAATAATCAGAGTCTAACTGAGAAA
*
18372918 A-AATAAT-AGAGAT-TAACTGGGAAA
1 AGAATAATCAGAG-TCTAACTGAGAAA
18372942 AGAATA
1 AGAATA
18372948 CGAGGCACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 14 0.54
25 11 0.42
26 1 0.04
ACGTcount: A:0.54, C:0.05, G:0.20, T:0.21
Consensus pattern (26 bp):
AGAATAATCAGAGTCTAACTGAGAAA
Found at i:18374969 original size:23 final size:26
Alignment explanation
Indices: 18374936--18374988 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 26
18374926 ATATCCCTAG
*
18374936 AATAATCAGAGTCTAATTG-G-GAAA
1 AATAATCAGAGTCTAACTGAGAGAAA
*
18374960 AATAA-CAGAGTTTAACTGAGAGAAA
1 AATAATCAGAGTCTAACTGAGAGAAA
18374985 AATA
1 AATA
18374989 CGAGGCACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 11 0.44
24 6 0.24
25 8 0.32
ACGTcount: A:0.51, C:0.08, G:0.19, T:0.23
Consensus pattern (26 bp):
AATAATCAGAGTCTAACTGAGAGAAA
Found at i:18375060 original size:40 final size:40
Alignment explanation
Indices: 18375003--18375090 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 40
18374993 GCACATCTCA
*
18375003 CAAAATTGTTAAGGTTTTACCAAAACT-TCTAAC-AATTTAC
1 CAAAATTTTTAAGGTTTTACCAAAA-TATCTAACGAA-TTAC
* *
18375043 CAAAATTTTTAATGTTTTACGAAAATATCTAACGAATTAC
1 CAAAATTTTTAAGGTTTTACCAAAATATCTAACGAATTAC
18375083 CAAAATTT
1 CAAAATTT
18375091 CTATCGATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
39 1 0.02
40 40 0.93
41 2 0.05
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.36
Consensus pattern (40 bp):
CAAAATTTTTAAGGTTTTACCAAAATATCTAACGAATTAC
Found at i:18375061 original size:20 final size:20
Alignment explanation
Indices: 18375003--18375090 Score: 68
Period size: 20 Copynumber: 4.4 Consensus size: 20
18374993 GCACATCTCA
* *
18375003 CAAAATTGTTAAGGTTTTAC
1 CAAAATTTTTAACGTTTTAC
* * **
18375023 CAAAACTTCTAACAATTTAC
1 CAAAATTTTTAACGTTTTAC
*
18375043 CAAAATTTTTAATGTTTTAC
1 CAAAATTTTTAACGTTTTAC
* * * **
18375063 GAAAATATCTAACGAATTAC
1 CAAAATTTTTAACGTTTTAC
18375083 CAAAATTT
1 CAAAATTT
18375091 CTATCGATTT
Statistics
Matches: 49, Mismatches: 19, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.36
Consensus pattern (20 bp):
CAAAATTTTTAACGTTTTAC
Found at i:18375102 original size:20 final size:20
Alignment explanation
Indices: 18375018--18375151 Score: 92
Period size: 20 Copynumber: 6.7 Consensus size: 20
18375008 TTGTTAAGGT
* *
18375018 TTTACCAAAACTTCTAACAA
1 TTTACCAAAATTTCTAACGA
* * *
18375038 TTTACCAAAATTTTTAATGT
1 TTTACCAAAATTTCTAACGA
* *
18375058 TTTACGAAAATATCTAACGA
1 TTTACCAAAATTTCTAACGA
* *
18375078 ATTACCAAAATTTCTATCGA
1 TTTACCAAAATTTCTAACGA
* * * *
18375098 TTTACTAATATTTATGA-GA
1 TTTACCAAAATTTCTAACGA
* *
18375117 CTTTAACAAAATTTTTAA-GA
1 -TTTACCAAAATTTCTAACGA
*
18375137 TTTTACCAATATTTC
1 -TTTACCAAAATTTC
18375152 CAAATTTTCT
Statistics
Matches: 84, Mismatches: 29, Indels: 2
0.73 0.25 0.02
Matches are distributed among these distances:
19 2 0.02
20 82 0.98
ACGTcount: A:0.40, C:0.15, G:0.05, T:0.40
Consensus pattern (20 bp):
TTTACCAAAATTTCTAACGA
Found at i:18375246 original size:20 final size:20
Alignment explanation
Indices: 18375223--18375275 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
18375213 AATATTTAAG
*
18375223 GATTTACTAATGTATCTAAC
1 GATTTACTAATATATCTAAC
18375243 GATTTACTAATATATCTAAC
1 GATTTACTAATATATCTAAC
* *
18375263 AATTTTCTAATAT
1 GATTTACTAATAT
18375276 TTCCAAGGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (20 bp):
GATTTACTAATATATCTAAC
Found at i:18375342 original size:20 final size:20
Alignment explanation
Indices: 18375314--18375352 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18375304 GATTTACCAA
*
18375314 TATATATTTACCAAAATTTC
1 TATAGATTTACCAAAATTTC
*
18375334 TATAGATTTACCAACATTT
1 TATAGATTTACCAAAATTT
18375353 ACGAGGCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.15, G:0.03, T:0.44
Consensus pattern (20 bp):
TATAGATTTACCAAAATTTC
Found at i:18375492 original size:40 final size:41
Alignment explanation
Indices: 18375435--18375519 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 41
18375425 ATTACATAAA
* * *
18375435 TCTTTAACTATTTACCAAAGTTTATATGAATTTATCAATATT
1 TCTTTAAC-ATTTACCAAAATATATAAGAATTTATCAATATT
* *
18375477 TCTTTAA-ATTTACCAAAATATCTAAGACTTTATCAATATT
1 TCTTTAACATTTACCAAAATATATAAGAATTTATCAATATT
18375517 TCT
1 TCT
18375520 ATTATCTACC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
40 31 0.82
42 7 0.18
ACGTcount: A:0.36, C:0.14, G:0.04, T:0.46
Consensus pattern (41 bp):
TCTTTAACATTTACCAAAATATATAAGAATTTATCAATATT
Found at i:18375520 original size:20 final size:18
Alignment explanation
Indices: 18375463--18375520 Score: 53
Period size: 20 Copynumber: 3.0 Consensus size: 18
18375453 AGTTTATATG
18375463 AATTTATCAATATTTCTTTA
1 AATTTATCAATATTTC--TA
* * *
18375483 AATTTACCAAAATATCTA
1 AATTTATCAATATTTCTA
18375501 AGACTTTATCAATATTTCTA
1 A-A-TTTATCAATATTTCTA
18375521 TTATCTACCA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
18 3 0.10
19 1 0.03
20 26 0.87
ACGTcount: A:0.40, C:0.14, G:0.02, T:0.45
Consensus pattern (18 bp):
AATTTATCAATATTTCTA
Found at i:18376350 original size:16 final size:15
Alignment explanation
Indices: 18376329--18376358 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
18376319 GCATTTGTTG
18376329 ATATTATTTATTTTTA
1 ATATTA-TTATTTTTA
18376345 ATATTATTATTTTT
1 ATATTATTATTTTT
18376359 GTAATTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
ATATTATTATTTTTA
Found at i:18389957 original size:91 final size:89
Alignment explanation
Indices: 18389789--18389983 Score: 234
Period size: 91 Copynumber: 2.2 Consensus size: 89
18389779 TTTGTGGTTG
* * * * * *
18389789 AACCACAAGTG-TTGCAGGTTAATACGCTGCTAGTAGTTGTGAATGCACAATGGGTTTGCAAATA
1 AACCACTAGTGTTTGCAGGTTAATACACAGCCAGTAGTTGTAAATGCACAATAGGTTTGCAAATA
*
18389853 ATAGCTACAAATAAAAATTATGGATA
66 AAAGCTACAAAT--AAATTATGGATA
* *
18389879 AACCACTAGTGTTTGCAGGTTAATACACAGCCAGTGGTTGTAAATGCACAATAGGTTTGCAGATA
1 AACCACTAGTGTTTGCAGGTTAATACACAGCCAGTAGTTGTAAATGCACAATAGGTTTGCAAATA
* *
18389944 AAAGCTGAC-AATAATTTGTGGATA
66 AAAGCT-ACAAATAAATTATGGATA
18389968 AACCA-TCAGTGTTTGC
1 AACCACT-AGTGTTTGC
18389984 TGTTAAAACT
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
88 1 0.01
89 24 0.26
90 10 0.11
91 54 0.59
92 2 0.02
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (89 bp):
AACCACTAGTGTTTGCAGGTTAATACACAGCCAGTAGTTGTAAATGCACAATAGGTTTGCAAATA
AAAGCTACAAATAAATTATGGATA
Found at i:18390313 original size:61 final size:61
Alignment explanation
Indices: 18390238--18390356 Score: 229
Period size: 61 Copynumber: 2.0 Consensus size: 61
18390228 TTTTTGACTC
18390238 ATTGTGCTATTAGGTTTGCTTTGTTAGTTTGATTCTAATACATTCTGATTGATTGATACTT
1 ATTGTGCTATTAGGTTTGCTTTGTTAGTTTGATTCTAATACATTCTGATTGATTGATACTT
*
18390299 ATTGTGCTATTAGGTTTGCTTTGTTAGTTTGATTTTAATACATTCTGATTGATTGATA
1 ATTGTGCTATTAGGTTTGCTTTGTTAGTTTGATTCTAATACATTCTGATTGATTGATA
18390357 TGCACTTTTT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.22, C:0.08, G:0.18, T:0.51
Consensus pattern (61 bp):
ATTGTGCTATTAGGTTTGCTTTGTTAGTTTGATTCTAATACATTCTGATTGATTGATACTT
Found at i:18393253 original size:18 final size:18
Alignment explanation
Indices: 18393214--18393255 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
18393204 ATTCTAAATT
*
18393214 TTTTATAATTATTAAGTA
1 TTTTATAATTATTAAGGA
*
18393232 TTTTA-AATTATTTAGGA
1 TTTTATAATTATTAAGGA
18393249 GTTTTAT
1 -TTTTAT
18393256 GTTTATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (18 bp):
TTTTATAATTATTAAGGA
Found at i:18393456 original size:14 final size:14
Alignment explanation
Indices: 18393437--18393469 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
18393427 CTCTTTGAGT
18393437 TTTCTTTTCAAGAA
1 TTTCTTTTCAAGAA
18393451 TTTCTTTTCAAGAA
1 TTTCTTTTCAAGAA
18393465 TTTCT
1 TTTCT
18393470 CTTGAGTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.24, C:0.15, G:0.06, T:0.55
Consensus pattern (14 bp):
TTTCTTTTCAAGAA
Found at i:18397588 original size:46 final size:46
Alignment explanation
Indices: 18397521--18397736 Score: 315
Period size: 46 Copynumber: 4.7 Consensus size: 46
18397511 GGCAACCTGA
18397521 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*
18397567 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* *
18397613 GTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*** * * *
18397659 GAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* * * *
18397705 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
18397737 TCATGTCAAA
Statistics
Matches: 156, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 156 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
Found at i:18397716 original size:138 final size:130
Alignment explanation
Indices: 18397471--18397736 Score: 379
Period size: 138 Copynumber: 2.0 Consensus size: 130
18397461 AGTGTGCTCT
*
18397471 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
* * * * * *
18397536 TGAAAGATACCATGGCAACCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
*
18397601 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG--A-G---TG--CAAG
*
18397666 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACT
58 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACC
18397731 ATGGCA
123 ATGGCA
18397737 TCATGTCAAA
Statistics
Matches: 119, Mismatches: 9, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
130 48 0.40
132 1 0.01
133 1 0.01
136 2 0.02
138 67 0.56
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
Found at i:18401333 original size:22 final size:20
Alignment explanation
Indices: 18401308--18401347 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
18401298 GTAATGACTA
*
18401308 AAATACTATTACTTTACAAAGT
1 AAATAATATTA-TTT-CAAAGT
18401330 AAATAATATTATTTCAAA
1 AAATAATATTATTTCAAA
18401348 AGTGTTCTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 3 0.18
22 10 0.59
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.38
Consensus pattern (20 bp):
AAATAATATTATTTCAAAGT
Found at i:18402172 original size:2 final size:2
Alignment explanation
Indices: 18402165--18402191 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18402155 CACTTGTTAA
18402165 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
18402192 AGAATTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18402210 original size:19 final size:19
Alignment explanation
Indices: 18402178--18402216 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
18402168 TATATATATA
18402178 TATATATATATATAAGAAT
1 TATATATATATATAAGAAT
* * *
18402197 TATATTTATTTATAATAAT
1 TATATATATATATAAGAAT
18402216 T
1 T
18402217 TTTAAAATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
TATATATATATATAAGAAT
Found at i:18403579 original size:29 final size:30
Alignment explanation
Indices: 18403547--18403605 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
18403537 TATGATTTAA
*
18403547 TGTGTAA-TTGTATATATG-AACTTTAATTT
1 TGTGTAACTT-TATACATGAAACTTTAATTT
*
18403576 TGTGTAACTTTATACATGAAATTTTAATTT
1 TGTGTAACTTTATACATGAAACTTTAATTT
18403606 CATCCAATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.32, C:0.05, G:0.12, T:0.51
Consensus pattern (30 bp):
TGTGTAACTTTATACATGAAACTTTAATTT
Found at i:18405479 original size:30 final size:31
Alignment explanation
Indices: 18405424--18405488 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 31
18405414 AGACCTCAAA
*
18405424 AAGTTTAAATACCAACTTAAGAAAAAGTCTC
1 AAGTCTAAATACCAACTTAAGAAAAAGTCTC
* * * *
18405455 AAGTCTAAATATCAA-TTAGGAAAAATTGTC
1 AAGTCTAAATACCAACTTAAGAAAAAGTCTC
18405485 AAGT
1 AAGT
18405489 TTGGATACCA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 16 0.55
31 13 0.45
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.28
Consensus pattern (31 bp):
AAGTCTAAATACCAACTTAAGAAAAAGTCTC
Found at i:18419965 original size:17 final size:17
Alignment explanation
Indices: 18419943--18419975 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
18419933 GAATCGTTTG
18419943 ATGCTCTTTACATTTTA
1 ATGCTCTTTACATTTTA
18419960 ATGCTCTTTACATTTT
1 ATGCTCTTTACATTTT
18419976 TGAATCGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.18, G:0.06, T:0.55
Consensus pattern (17 bp):
ATGCTCTTTACATTTTA
Found at i:18426125 original size:55 final size:55
Alignment explanation
Indices: 18426038--18426164 Score: 137
Period size: 55 Copynumber: 2.3 Consensus size: 55
18426028 TATATGTAAA
* * * * * * *
18426038 CACGCCCGTGTTATTTTGACAGTTTCAACCACGGGTGGTGGGCACGGGCGTGTCG
1 CACGCCCGTGTTAATTTCACAGTTTCAACCACGGCTGATAGACACGGGCATGTCG
* ** *
18426093 CACGCCCGTGTTAATTTCTCAGTTTCTTCCACGGCTTATAGACACGGGCATGTCG
1 CACGCCCGTGTTAATTTCACAGTTTCAACCACGGCTGATAGACACGGGCATGTCG
* *
18426148 CACGCCCGCGTTGATTT
1 CACGCCCGTGTTAATTT
18426165 GGCAGAATTG
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
55 59 1.00
ACGTcount: A:0.16, C:0.28, G:0.28, T:0.28
Consensus pattern (55 bp):
CACGCCCGTGTTAATTTCACAGTTTCAACCACGGCTGATAGACACGGGCATGTCG
Found at i:18430825 original size:40 final size:40
Alignment explanation
Indices: 18430749--18430876 Score: 148
Period size: 40 Copynumber: 3.2 Consensus size: 40
18430739 CAAAATACAT
* * * * *
18430749 CAAATAGAAGCTCATAATAGTTGATTCAATCAAAACATGC
1 CAAACAGAAGCTCATAAAAGCTGATCCAATCGAAACATGC
* * **
18430789 CAAACAGAAGCTCATAAGAGCTGATCCAATTGAAACACAC
1 CAAACAGAAGCTCATAAAAGCTGATCCAATCGAAACATGC
* * *
18430829 CAGACAGAAACTCATAAAAGCTGATCCAACCGAAACATGC
1 CAAACAGAAGCTCATAAAAGCTGATCCAATCGAAACATGC
18430869 CAAACAGA
1 CAAACAGA
18430877 GAGTATAACA
Statistics
Matches: 72, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.46, C:0.23, G:0.14, T:0.16
Consensus pattern (40 bp):
CAAACAGAAGCTCATAAAAGCTGATCCAATCGAAACATGC
Found at i:18430845 original size:80 final size:80
Alignment explanation
Indices: 18430712--18430876 Score: 195
Period size: 80 Copynumber: 2.1 Consensus size: 80
18430702 AACACACCAG
* * * * * * * *
18430712 ACAGAAGCTCATAAGAGCTGGTCAAACCAAAATACATCAAATAGAAGCTCATAATAGTTGATTCA
1 ACAGAAGCTCATAAGAGCTGATCAAACCAAAACACACCAAACAGAAACTCATAAAAGCTGATCCA
*
18430777 ATCAAAACATGCCAA
66 ACCAAAACATGCCAA
* *** *
18430792 ACAGAAGCTCATAAGAGCTGATCCAATTGAAACACACCAGACAGAAACTCATAAAAGCTGATCCA
1 ACAGAAGCTCATAAGAGCTGATCAAACCAAAACACACCAAACAGAAACTCATAAAAGCTGATCCA
*
18430857 ACCGAAACATGCCAA
66 ACCAAAACATGCCAA
18430872 ACAGA
1 ACAGA
18430877 GAGTATAACA
Statistics
Matches: 70, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
80 70 1.00
ACGTcount: A:0.46, C:0.23, G:0.15, T:0.16
Consensus pattern (80 bp):
ACAGAAGCTCATAAGAGCTGATCAAACCAAAACACACCAAACAGAAACTCATAAAAGCTGATCCA
ACCAAAACATGCCAA
Found at i:18433567 original size:26 final size:25
Alignment explanation
Indices: 18433538--18433618 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 25
18433528 AATATTATAT
18433538 TAATTAAATATTAAATCTTATTAAAA
1 TAATTAAATATTAAATC-TATTAAAA
*
18433564 TAA-TAGAATATAGATAAA--TATTAAAT
1 TAATTA-AATAT---TAAATCTATTAAAA
*
18433590 TAAATTTAATATTAAA-CTATTAAAA
1 T-AATTAAATATTAAATCTATTAAAA
18433615 TAAT
1 TAAT
18433619 ATTATTTTTG
Statistics
Matches: 45, Mismatches: 3, Indels: 16
0.70 0.05 0.25
Matches are distributed among these distances:
24 7 0.16
25 10 0.22
26 16 0.36
27 7 0.16
28 1 0.02
29 4 0.09
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (25 bp):
TAATTAAATATTAAATCTATTAAAA
Found at i:18435267 original size:16 final size:16
Alignment explanation
Indices: 18435246--18435276 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18435236 GCTATGCATG
*
18435246 AAAAATATAAAAGACA
1 AAAAATAAAAAAGACA
18435262 AAAAATAAAAAAGAC
1 AAAAATAAAAAAGAC
18435277 GTAATAGTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.77, C:0.06, G:0.06, T:0.10
Consensus pattern (16 bp):
AAAAATAAAAAAGACA
Found at i:18435573 original size:28 final size:29
Alignment explanation
Indices: 18435509--18435581 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 29
18435499 CAGTCCATGA
18435509 CCCAATTACATAAAACAACCCAAATAAACCCAG
1 CCCAATTAC-T-AAACAACCCAAAT--ACCCAG
*
18435542 CCCAATTACTAAATAACCCAAAT-CCCAG
1 CCCAATTACTAAACAACCCAAATACCCAG
*
18435570 CCC-ATTCCTAAA
1 CCCAATTACTAAA
18435582 ATAGCCTAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
27 8 0.21
28 8 0.21
31 12 0.32
32 1 0.03
33 9 0.24
ACGTcount: A:0.45, C:0.36, G:0.03, T:0.16
Consensus pattern (29 bp):
CCCAATTACTAAACAACCCAAATACCCAG
Found at i:18435583 original size:28 final size:30
Alignment explanation
Indices: 18435509--18435584 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 30
18435499 CAGTCCATGA
*
18435509 CCCAATTACATAAAACAACCCAAATAAACCCAG
1 CCCAATTAC-TAAAATAACCCAAAT--ACCCAG
18435542 CCCAATTACT-AAATAACCCAAAT-CCCAG
1 CCCAATTACTAAAATAACCCAAATACCCAG
*
18435570 CCC-ATTCCTAAAATA
1 CCCAATTACTAAAATA
18435585 GCCTAGATGG
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
27 5 0.12
28 13 0.32
31 12 0.30
32 1 0.03
33 9 0.22
ACGTcount: A:0.46, C:0.34, G:0.03, T:0.17
Consensus pattern (30 bp):
CCCAATTACTAAAATAACCCAAATACCCAG
Found at i:18436553 original size:28 final size:28
Alignment explanation
Indices: 18436512--18436568 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
18436502 TTAGCCCTCT
*
18436512 TAGGTTTGCCCGTGTTGTGTTTTGGTCC
1 TAGGTTTGCCCGTGTTGTATTTTGGTCC
*
18436540 TAGGTTTGCGCGTGTTGTATTTTGGTCC
1 TAGGTTTGCCCGTGTTGTATTTTGGTCC
18436568 T
1 T
18436569 TCATATTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.05, C:0.16, G:0.32, T:0.47
Consensus pattern (28 bp):
TAGGTTTGCCCGTGTTGTATTTTGGTCC
Found at i:18436776 original size:2 final size:2
Alignment explanation
Indices: 18436769--18436801 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
18436759 TACTTTTCTT
18436769 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18436802 TTGAAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18440159 original size:16 final size:14
Alignment explanation
Indices: 18440131--18440178 Score: 51
Period size: 16 Copynumber: 3.2 Consensus size: 14
18440121 TTATTTCATA
18440131 AACCCTAAAAACCTT
1 AACCCT-AAAACCTT
* *
18440146 AACCTTACAAAACCCT
1 AACCCT--AAAACCTT
18440162 AACCCTAAAACCTT
1 AACCCTAAAACCTT
18440176 AAC
1 AAC
18440179 AAAAATCTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
14 10 0.37
15 5 0.19
16 12 0.44
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (14 bp):
AACCCTAAAACCTT
Found at i:18440188 original size:25 final size:25
Alignment explanation
Indices: 18440146--18440195 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
18440136 TAAAAACCTT
*
18440146 AACCTTACAAAACCCT-AACCCTAA
1 AACCTTACAAAAACCTAAACCCTAA
*
18440170 AACCTTAACAAAAATCTAAACCCTAA
1 AACCTT-ACAAAAACCTAAACCCTAA
18440196 CCCTAAAGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 6 0.27
25 8 0.36
26 8 0.36
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (25 bp):
AACCTTACAAAAACCTAAACCCTAA
Found at i:18440425 original size:17 final size:17
Alignment explanation
Indices: 18440403--18440435 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18440393 ATCCATTAAT
*
18440403 TAATATACTATCATAAA
1 TAATATACTATAATAAA
18440420 TAATATACTATAATAA
1 TAATATACTATAATAA
18440436 GAAATTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (17 bp):
TAATATACTATAATAAA
Found at i:18440609 original size:31 final size:30
Alignment explanation
Indices: 18440520--18440616 Score: 88
Period size: 31 Copynumber: 3.1 Consensus size: 30
18440510 TCATCAATAC
* *
18440520 TATTATAAAAATAATTTATTTATAATATCATT
1 TATTATAAAAATAATTTATCT-TAATATTA-T
* * * * *
18440552 TATCAT-GAATTAATATATCATCAATATTAT
1 TATTATAAAAATAATTTATC-TTAATATTAT
18440582 TATTATAAAAATAATTTATCTGTAATATTAT
1 TATTATAAAAATAATTTATCT-TAATATTAT
18440613 TATT
1 TATT
18440617 TACCTTAATG
Statistics
Matches: 50, Mismatches: 12, Indels: 7
0.72 0.17 0.10
Matches are distributed among these distances:
30 7 0.14
31 37 0.74
32 6 0.12
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.48
Consensus pattern (30 bp):
TATTATAAAAATAATTTATCTTAATATTAT
Found at i:18440987 original size:2 final size:2
Alignment explanation
Indices: 18440976--18441032 Score: 98
Period size: 2 Copynumber: 29.0 Consensus size: 2
18440966 TACCTTCTTT
18440976 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
18441017 TA TA TA GA TA TA TA TA
1 TA TA TA TA TA TA TA TA
18441033 GTTTTAGTTA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 51 0.98
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:18441918 original size:3 final size:3
Alignment explanation
Indices: 18441910--18441937 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
18441900 ACATGTAACT
18441910 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
18441938 CATTTCAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Done.