Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 74 of 345
Found at i:23612031 original size:6 final size:6
Alignment explanation
Indices: 23612021--23612076 Score: 58
Period size: 6 Copynumber: 8.8 Consensus size: 6
23612011 TTTTAATCGA
* * *
23612021 ATTTTA ATTTTG ATTTTG ATTTTG ATTTTG AGTTTTTTG TTTTTG ATTTTA
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG A---TTTTG ATTTTG ATTTTG
23612072 ATTTT
1 ATTTT
23612077 TTTTTGTCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
6 38 0.88
9 5 0.12
ACGTcount: A:0.18, C:0.00, G:0.12, T:0.70
Consensus pattern (6 bp):
ATTTTG
Found at i:23612064 original size:21 final size:21
Alignment explanation
Indices: 23612034--23612079 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
23612024 TTAATTTTGA
*
23612034 TTTTGATTTTGATTTTGAGTT
1 TTTTGATTTTGATTTTAAGTT
* *
23612055 TTTTGTTTTTGATTTTAATTT
1 TTTTGATTTTGATTTTAAGTT
23612076 TTTT
1 TTTT
23612080 TTGTCAAAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.74
Consensus pattern (21 bp):
TTTTGATTTTGATTTTAAGTT
Found at i:23619111 original size:23 final size:24
Alignment explanation
Indices: 23619085--23619130 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
23619075 TATAATAGTA
* *
23619085 TTATGTATTATAAA-AATGTAATT
1 TTATATATTATAAATAATATAATT
*
23619108 TTATATGTTATAAATAATATAAT
1 TTATATATTATAAATAATATAAT
23619131 ATTCACAAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.48
Consensus pattern (24 bp):
TTATATATTATAAATAATATAATT
Found at i:23620337 original size:22 final size:22
Alignment explanation
Indices: 23620311--23620357 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
23620301 AATGGACACC
23620311 AACCAAGTCTAAGCAATGCTCA
1 AACCAAGTCTAAGCAATGCTCA
23620333 AACCAAGTCTAAGCAATGCTCA
1 AACCAAGTCTAAGCAATGCTCA
23620355 AAC
1 AAC
23620358 TTGGTTATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.43, C:0.28, G:0.13, T:0.17
Consensus pattern (22 bp):
AACCAAGTCTAAGCAATGCTCA
Found at i:23622613 original size:17 final size:17
Alignment explanation
Indices: 23622591--23622624 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
23622581 AAGTAAAAGA
23622591 TATTT-ATTGATTATTAT
1 TATTTAATTGA-TATTAT
23622608 TATTTAATTGATATTAT
1 TATTTAATTGATATTAT
23622625 ATTAGTGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
TATTTAATTGATATTAT
Found at i:23623104 original size:19 final size:17
Alignment explanation
Indices: 23623080--23623116 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
23623070 TAGTTAAATG
23623080 ATAAAATAATACAAAGAAA
1 ATAAAAT-ATA-AAAGAAA
23623099 ATAAAATATAAAAGAAA
1 ATAAAATATAAAAGAAA
23623116 A
1 A
23623117 ACAAAGAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
18 3 0.17
19 7 0.39
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (17 bp):
ATAAAATATAAAAGAAA
Found at i:23624247 original size:45 final size:45
Alignment explanation
Indices: 23624179--23624279 Score: 139
Period size: 45 Copynumber: 2.2 Consensus size: 45
23624169 CTTATCTGCT
* *
23624179 GTTACTGCTACTGATTCAACACTTTGTATGTCGAATACTGTTACC
1 GTTACTGTTACAGATTCAACACTTTGTATGTCGAATACTGTTACC
* * * * *
23624224 GTTACTGTTACAGATTCAGCACTTTGTGTGTTGAATACTGTTGCT
1 GTTACTGTTACAGATTCAACACTTTGTATGTCGAATACTGTTACC
23624269 GTTACTGTTAC
1 GTTACTGTTAC
23624280 TGCTACTGTT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (45 bp):
GTTACTGTTACAGATTCAACACTTTGTATGTCGAATACTGTTACC
Found at i:23624276 original size:6 final size:6
Alignment explanation
Indices: 23624259--23624292 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
23624249 GTGTGTTGAA
* *
23624259 TACTGT TGCTGT TACTGT TACTGC TACTGT TACT
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACT
23624293 AATTACTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.47
Consensus pattern (6 bp):
TACTGT
Found at i:23632979 original size:107 final size:107
Alignment explanation
Indices: 23632789--23632990 Score: 271
Period size: 107 Copynumber: 1.9 Consensus size: 107
23632779 CACGCCATCA
* * * * * *
23632789 CGATGGCTGAGATCTTGCATATGTTGTGGATTCTTAATAGTTTGTGTGAGCAACATCGTGAACTG
1 CGATGGCTGAGATCCTACATATGTTGCGGATTCTCAACAGCTTGTGTGAGCAACATCGTGAACTG
* **
23632854 GTGAATTGAATGGCTACTCTATTA-TGATGACATAGGCCGTTC
66 GTGAAATGAATGAATACTCTA-TACTGATGACATAGGCCGTTC
* * *
23632896 CGATGGCTGAGATCCTACATATGTTGCGGATTCTCGACAGCTTGTGTGAGTAGCATCGTGAACTG
1 CGATGGCTGAGATCCTACATATGTTGCGGATTCTCAACAGCTTGTGTGAGCAACATCGTGAACTG
*
23632961 GTGAAATGACTGAATACTCTATACTGATGA
66 GTGAAATGAATGAATACTCTATACTGATGA
23632991 AATGGATCAT
Statistics
Matches: 81, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
106 2 0.02
107 79 0.98
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.32
Consensus pattern (107 bp):
CGATGGCTGAGATCCTACATATGTTGCGGATTCTCAACAGCTTGTGTGAGCAACATCGTGAACTG
GTGAAATGAATGAATACTCTATACTGATGACATAGGCCGTTC
Found at i:23636301 original size:23 final size:23
Alignment explanation
Indices: 23636271--23636348 Score: 92
Period size: 23 Copynumber: 3.6 Consensus size: 23
23636261 TGGGTGAAGG
23636271 ACACGGGCGTGTGCATTGCCTCC
1 ACACGGGCGTGTGCATTGCCTCC
* **
23636294 ACACGGGCGTGTTCAAAG----C
1 ACACGGGCGTGTGCATTGCCTCC
*
23636313 ACACGGGCGTGTACATTGCCTCC
1 ACACGGGCGTGTGCATTGCCTCC
23636336 ACACGGGCGTGTG
1 ACACGGGCGTGTG
23636349 AGGTTTAAAC
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
19 16 0.36
23 28 0.64
ACGTcount: A:0.18, C:0.31, G:0.32, T:0.19
Consensus pattern (23 bp):
ACACGGGCGTGTGCATTGCCTCC
Found at i:23657388 original size:40 final size:42
Alignment explanation
Indices: 23657300--23657414 Score: 121
Period size: 40 Copynumber: 2.8 Consensus size: 42
23657290 CTAATTCTCA
* * * *
23657300 CACACTAAGTGCCAATACATAGCTGAAGCTAT-TTTAATCTAG
1 CACATTAAGTG-CAATACGTAGCCGAAGCTATCTTGAATCTAG
*
23657342 CACATTAAGTGCTATACGTAGCCGAAGCTATCTTGAAT-T-G
1 CACATTAAGTGCAATACGTAGCCGAAGCTATCTTGAATCTAG
* * *
23657382 CACATTAAGTGCCATACGTAACCG-AGTTATCTT
1 CACATTAAGTGCAATACGTAGCCGAAGCTATCTT
23657415 CAAATATGAC
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
39 8 0.12
40 23 0.36
41 18 0.28
42 15 0.23
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.30
Consensus pattern (42 bp):
CACATTAAGTGCAATACGTAGCCGAAGCTATCTTGAATCTAG
Found at i:23660849 original size:27 final size:27
Alignment explanation
Indices: 23660819--23660880 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
23660809 GGCATAATCA
* *
23660819 TCATTTTACCATATAGGGGTATTACGG
1 TCATTTTACCATACAGGGGTATTACAG
* *
23660846 TCATTTTACCGTACAGGGGTATTATAG
1 TCATTTTACCATACAGGGGTATTACAG
23660873 TCATTTTA
1 TCATTTTA
23660881 TAAATTGGGG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (27 bp):
TCATTTTACCATACAGGGGTATTACAG
Found at i:23660891 original size:27 final size:27
Alignment explanation
Indices: 23660861--23660912 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
23660851 TTACCGTACA
* *
23660861 GGGGTATTATA-GTCATTTTATAAATTG
1 GGGGTATT-TAGGTAATTTTACAAATTG
23660888 GGGGTATTTAGGTAATTTTACAAAT
1 GGGGTATTTAGGTAATTTTACAAAT
23660913 CAGGGTCTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 2 0.09
27 20 0.91
ACGTcount: A:0.31, C:0.04, G:0.23, T:0.42
Consensus pattern (27 bp):
GGGGTATTTAGGTAATTTTACAAATTG
Found at i:23665140 original size:47 final size:47
Alignment explanation
Indices: 23665047--23665147 Score: 114
Period size: 47 Copynumber: 2.1 Consensus size: 47
23665037 TCTTGTTTGT
** * * * *
23665047 CGTACTGTTACTATTACTTCGGTTTAATCCGATGAGGTAGTGAGTAC
1 CGTACTGTTACTATTACTTCGGTCAAAGCCGATGAGGCACTAAGTAC
* *
23665094 TGTACTGTTACTGTTTACTTCGG-CAAAGCCGATGAGGCACTAAGTAC
1 CGTACTGTTACT-ATTACTTCGGTCAAAGCCGATGAGGCACTAAGTAC
23665141 CGTACTG
1 CGTACTG
23665148 GTGTGTTGGT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
47 35 0.80
48 9 0.20
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (47 bp):
CGTACTGTTACTATTACTTCGGTCAAAGCCGATGAGGCACTAAGTAC
Found at i:23671271 original size:19 final size:20
Alignment explanation
Indices: 23671244--23671289 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
23671234 AATTGAAGTA
* *
23671244 AATAATATTTTAATATT-TT
1 AATATTATTATAATATTATT
*
23671263 AATATTATTATATTATTATT
1 AATATTATTATAATATTATT
23671283 -ATATTAT
1 AATATTAT
23671290 ATTAGTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 21 0.91
20 2 0.09
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
AATATTATTATAATATTATT
Found at i:23671275 original size:16 final size:17
Alignment explanation
Indices: 23671246--23671298 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
23671236 TTGAAGTAAA
23671246 TAATATT-TTAATATT-T
1 TAATATTATT-ATATTAT
23671262 TAATATTATTATATTAT
1 TAATATTATTATATTAT
*
23671279 TATTA-TATTATATTAGT
1 TAATATTATTATATTA-T
23671296 TAA
1 TAA
23671299 AATAAAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 22 0.69
17 10 0.31
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (17 bp):
TAATATTATTATATTAT
Found at i:23671286 original size:11 final size:11
Alignment explanation
Indices: 23671265--23671293 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
23671255 AATATTTTAA
23671265 TATTATTATAT
1 TATTATTATAT
23671276 TATTATTATAT
1 TATTATTATAT
23671287 TA-TATTA
1 TATTATTA
23671294 GTTAAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TATTATTATAT
Found at i:23685391 original size:5 final size:5
Alignment explanation
Indices: 23685381--23685411 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
23685371 GATTCCAACC
23685381 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
23685412 GTTTATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:23691313 original size:15 final size:16
Alignment explanation
Indices: 23691293--23691325 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
23691283 TTGGGTTGAG
23691293 AAAATT-ATTTAATTA
1 AAAATTAATTTAATTA
*
23691308 AAAATTAATTTATTTA
1 AAAATTAATTTAATTA
23691324 AA
1 AA
23691326 TTAACAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AAAATTAATTTAATTA
Found at i:23691329 original size:21 final size:22
Alignment explanation
Indices: 23691297--23691345 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
23691287 GTTGAGAAAA
*
23691297 TTATTTAATTAA-AAATTA-AT
1 TTATTTAATTAACAAATAATAT
23691317 TTATTTAAATTAACAAATAATAT
1 TTATTT-AATTAACAAATAATAT
23691340 TTATTT
1 TTATTT
23691346 TGGAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 6 0.24
21 6 0.24
22 5 0.20
23 8 0.32
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
TTATTTAATTAACAAATAATAT
Found at i:23700878 original size:9 final size:9
Alignment explanation
Indices: 23700864--23700891 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
23700854 TGTTAGAAAT
23700864 AAAAAATAA
1 AAAAAATAA
23700873 AAAAAATAA
1 AAAAAATAA
23700882 AAAAAATAA
1 AAAAAATAA
23700891 A
1 A
23700892 GAAATCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAAATAA
Found at i:23700901 original size:16 final size:16
Alignment explanation
Indices: 23700858--23700901 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
23700848 TTAAAGTGTT
23700858 AGAAATAAAAAATAAA
1 AGAAATAAAAAATAAA
* *
23700874 AAAAATAAAAAAAATAA
1 AGAAATAAAAAATA-AA
*
23700891 AGAAATCAAAA
1 AGAAATAAAAA
23700902 TATGTTAGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.82, C:0.02, G:0.05, T:0.11
Consensus pattern (16 bp):
AGAAATAAAAAATAAA
Found at i:23708769 original size:49 final size:48
Alignment explanation
Indices: 23708668--23708940 Score: 225
Period size: 49 Copynumber: 5.6 Consensus size: 48
23708658 GTACGATGTT
* * * * * * * *
23708668 GATGCCATGTTCTAAACATGGTCTTACATTGGCTCTCA-CATCTAAGTC
1 GATGCCATGTCCCAGACA-GGTCTTACACTGACTCTCATCATCGAGGCC
* * *
23708716 GATGCCATGTCCTAGACAGGTCTTACACTGACTTTCATACATCGAGGCT
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTCTCAT-CATCGAGGCC
* * * *
23708765 GATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCACTTATCTG-TGTC
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTCTCA-TCATC-GAGGCC
* *
23708814 GATGCCATGTCCTAGACAAGTCTTACACT-AGCT-TGCAT-ATCTTGAGGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTGA-CTCT-CATCATC--GAGGCC
* * *
23708863 GATACCATGTCCCAGACAGGTCTTTCACTGGCTCTCATCTATC-AGTGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATC-ATCGAG-GCC
*
23708912 AATGCCATGTCCCAGACAGGTCTTACACT
1 GATGCCATGTCCCAGACAGGTCTTACACT
23708941 AGCACACACA
Statistics
Matches: 183, Mismatches: 29, Indels: 25
0.77 0.12 0.11
Matches are distributed among these distances:
47 19 0.10
48 22 0.12
49 136 0.74
50 3 0.02
51 3 0.02
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (48 bp):
GATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATCATCGAGGCC
Found at i:23708837 original size:98 final size:98
Alignment explanation
Indices: 23708667--23708943 Score: 339
Period size: 98 Copynumber: 2.8 Consensus size: 98
23708657 GGTACGATGT
* * * * **
23708667 TGATGCCATGTTCTAAACATGGTCTTACATTGGCTCTCAC--ATCTAAGTCGATGCCATGTCCTA
1 TGATGCCATGTCCCAGACA-GGTCTTACACTGGCTCTCACTTATCTGTGTCGATGCCATGTCCTA
*
23708730 GACAGGTCTTACACT-GACTTTCATA-CATCGAGGC
65 GACAGGTCTTACACTAG-CTTGCATATC-TCGAGGC
23708764 TGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCACTTATCTGTGTCGATGCCATGTCCTAG
1 TGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCACTTATCTGTGTCGATGCCATGTCCTAG
* *
23708829 ACAAGTCTTACACTAGCTTGCATATCTTGAGGC
66 ACAGGTCTTACACTAGCTTGCATATCTCGAGGC
* * * * * * *
23708862 CGATACCATGTCCCAGACAGGTCTTTCACTGGCTCTCA-TCTATCAGTGCCAATGCCATGTCCCA
1 TGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCACT-TATCTGTGTCGATGCCATGTCCTA
23708926 GACAGGTCTTACACTAGC
65 GACAGGTCTTACACTAGC
23708944 ACACACATCA
Statistics
Matches: 158, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
96 19 0.12
97 17 0.11
98 120 0.76
99 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (98 bp):
TGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCACTTATCTGTGTCGATGCCATGTCCTAG
ACAGGTCTTACACTAGCTTGCATATCTCGAGGC
Found at i:23709262 original size:14 final size:14
Alignment explanation
Indices: 23709243--23709272 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
23709233 ATTTAATCAT
23709243 CACATTAATAAAAA
1 CACATTAATAAAAA
23709257 CACATTAATAAAAA
1 CACATTAATAAAAA
23709271 CA
1 CA
23709273 TTCTACAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.63, C:0.17, G:0.00, T:0.20
Consensus pattern (14 bp):
CACATTAATAAAAA
Found at i:23722843 original size:40 final size:39
Alignment explanation
Indices: 23722740--23722884 Score: 137
Period size: 40 Copynumber: 3.6 Consensus size: 39
23722730 TACTCGAATG
* *
23722740 ATATCCGGGCTAAGTCCCGAAGGCTTTTGCGCTAAGCGACT
1 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCT-AGCGACT
* **
23722781 ACATCCGAACTAAGATCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCGAAGGCATTTGTGCTAGCGACT
* ** * *
23722821 ATATCCGGGCTATGTCCTGAAGGCATTCATGCTAGTGACC
1 ATATCCGGGCTAAGTCC-GAAGGCATTTGTGCTAGCGACT
* *
23722861 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAG-TCCGAAGGC
23722885 CTTGTGCGAG
Statistics
Matches: 85, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 3 0.04
40 53 0.62
41 28 0.33
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGCGACT
Found at i:23779314 original size:39 final size:39
Alignment explanation
Indices: 23779193--23779374 Score: 158
Period size: 40 Copynumber: 4.6 Consensus size: 39
23779183 TTGAATGCTG
* * *
23779193 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGT-ATTAAT
** *
23779232 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAG-TATTAAT
* *
23779273 TCCGGGTTAAGTCCCGAAGGCCTTTG-GCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG-TATTAAT
* * *
23779312 TCCGGGTTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAAA
1 TCCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTATT-AAT
23779353 TCC-GGTTAAGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCAT
23779375 GAATGAAGTT
Statistics
Matches: 119, Mismatches: 15, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
39 35 0.29
40 63 0.53
41 21 0.18
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTATTAAT
Found at i:23786686 original size:36 final size:37
Alignment explanation
Indices: 23786639--23786745 Score: 164
Period size: 36 Copynumber: 2.9 Consensus size: 37
23786629 GCGCAGACGA
* *
23786639 AATCTCCACACGAAGTTATCGGGTCTTACCCGGAC-C
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAC
*
23786675 AATCTCCACACGTAGTCATCGGGTCTTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTC-TTACCCGGACAC
23786713 AATCTCCACACGTAG-CATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
23786746 ATATGATTTC
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
36 32 0.48
37 19 0.29
38 15 0.23
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAC
Found at i:23787038 original size:48 final size:48
Alignment explanation
Indices: 23786888--23787074 Score: 245
Period size: 48 Copynumber: 3.8 Consensus size: 48
23786878 CACAATCGCC
* *
23786888 TACATATTTCACACTAGCCATTTCGAACTTTA-CACATTATA-ATATCTCA
1 TACATATTTCACATTAGCCA-TTCG-GCTTTACCACA-TATACATATCTCA
* *
23786937 TATATTATATTCACATT-GACCATTCGGCTTTACCACATATGCATAATCTCA
1 TACA-TAT-TTCACATTAG-CCATTCGGCTTTACCACATATACAT-ATCTCA
*
23786988 TACATATTTCACATTAGTCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
23787036 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
23787075 TAGCATGTCA
Statistics
Matches: 123, Mismatches: 8, Indels: 15
0.84 0.05 0.10
Matches are distributed among these distances:
48 44 0.36
49 42 0.34
50 18 0.15
51 19 0.15
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:23787059 original size:97 final size:100
Alignment explanation
Indices: 23786888--23787073 Score: 267
Period size: 97 Copynumber: 1.9 Consensus size: 100
23786878 CACAATCGCC
*
23786888 TACATATTTCACACTAGCCATTTCGAACTTTACACATTATAATATCTCATATATTATATTCACAT
1 TACATATTTCACACTAGCCATTTCGAACTTTACACATTATAATATCTCATACATTATATTCACAT
23786953 TGACCATTCGGCTTTACCACATATGCATAATCTCA
66 TGACCATTCGGCTTTACCACATATGCATAATCTCA
* * *
23786988 TACATATTTCACATTAGTCA-TTCG-GCTTTACCACA-TATACATATCTCATACA-TAT-TTCAC
1 TACATATTTCACACTAGCCATTTCGAACTTTA-CACATTATA-ATATCTCATACATTATATTCAC
23787048 ATT-AGCCATTCGGCTTTACCACATAT
64 ATTGA-CCATTCGGCTTTACCACATAT
23787074 ATAGCATGTC
Statistics
Matches: 79, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
96 1 0.01
97 29 0.37
98 12 0.15
99 19 0.24
100 18 0.23
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (100 bp):
TACATATTTCACACTAGCCATTTCGAACTTTACACATTATAATATCTCATACATTATATTCACAT
TGACCATTCGGCTTTACCACATATGCATAATCTCA
Found at i:23787120 original size:97 final size:97
Alignment explanation
Indices: 23786919--23787122 Score: 215
Period size: 97 Copynumber: 2.1 Consensus size: 97
23786909 TTCGAACTTT
*
23786919 ACACATTATAATATCTCATATATTATATTCACATTGACCATTCGGCTTTACCACATATGCATAAT
1 ACACA-TATAATATCTCATACATTATATTCACATTGACCATTCGGCTTTACCACATAT-CATAAT
** * *
23786984 CTCATACATATTTCACATTAGTCATTCGGCTTTAC
64 CTCATA-ATATACCACATTAGCCATTCGGCCTTAC
23787019 -CACATATACATATCTCATACA-TAT-TTCACATT-AGCCATTCGGCTTTACCACATAT-ATAGC
1 ACACATATA-ATATCTCATACATTATATTCACATTGA-CCATTCGGCTTTACCACATATCATA--
* *
23787079 ATGTCAT-AT-TCACCACATTGGCCATTCGGCCTTATC
62 ATCTCATAATAT-ACCACATTAGCCATTCGGCCTTA-C
23787115 ACACATAT
1 ACACATAT
23787123 GCATGCTTCA
Statistics
Matches: 90, Mismatches: 7, Indels: 17
0.79 0.06 0.15
Matches are distributed among these distances:
94 1 0.01
95 23 0.26
96 2 0.02
97 42 0.47
98 7 0.08
99 15 0.17
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.35
Consensus pattern (97 bp):
ACACATATAATATCTCATACATTATATTCACATTGACCATTCGGCTTTACCACATATCATAATCT
CATAATATACCACATTAGCCATTCGGCCTTAC
Found at i:23791575 original size:83 final size:82
Alignment explanation
Indices: 23791382--23791720 Score: 324
Period size: 83 Copynumber: 4.0 Consensus size: 82
23791372 GGCACAAAAG
* * * * *
23791382 GCTCTTCGGAACTTAGCCCGGAGACATCAGCTAGCACGACAGGCTCTTTC-GGGA-TGTGAGTCC
1 GCTCTTAGGGACTTAGTCCGGATACATCA-CTAGCACGA-ATGCTC-TTCGGGGACT-T-AG-CC
23791445 -GG-TACATGCACTTAGCACGGAGAT
60 TGGATACAT-CAC-TAGCACGGA-AT
*
23791469 GCTCTTTGGGACTTAGTCCGGATACATCACTAGCACGAATGCTCTTTCGGGGACTTAGCCTGGAA
1 GCTCTTAGGGACTTAGTCCGGATACATCACTAGCACGAATGCTC-TTCGGGGACTTAGCCTGG-A
*
23791534 TATATCACTAGCACGGAAT
64 TACATCACTAGCACGGAAT
* * *
23791553 -CTCTTGGGGACTTAGTCTGGATACATCACTAGCAGGAATGCTCTTC-GGGACTTAGTAGTCC-G
1 GCTCTTAGGGACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGGAC-T--TAG-CCTG
23791615 GATACATCACTTAGCAC-GAAT
62 GATACATCAC-TAGCACGGAAT
*
23791636 GC-CTTCAGGGACTTAGTCCGGATACATCACTAGCACGAATGCTC-TCAGAGGACTTAGCCTTGG
1 GCTCTT-AGGGACTTAGTCCGGATACATCACTAGCACGAATGCTCTTC-GGGGACTTAGCC-TGG
23791699 ATACATCACTA-CAC-GAAT
63 ATACATCACTAGCACGGAAT
23791717 GCTC
1 GCTC
23791721 GTCGCACGAG
Statistics
Matches: 221, Mismatches: 14, Indels: 39
0.81 0.05 0.14
Matches are distributed among these distances:
81 16 0.07
82 10 0.05
83 68 0.31
84 52 0.24
85 28 0.13
86 17 0.08
87 30 0.14
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.25
Consensus pattern (82 bp):
GCTCTTAGGGACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGGACTTAGCCTGGATA
CATCACTAGCACGGAAT
Found at i:23791660 original size:41 final size:41
Alignment explanation
Indices: 23791382--23791720 Score: 317
Period size: 43 Copynumber: 8.1 Consensus size: 41
23791372 GGCACAAAAG
* * * *
23791382 GCTCTTC-GGAACTTAGCCCGGAGACATCAGCTAGCACGACAG
1 GCTCTTCAGGGACTTAGTCCGGATACATCA-CTAGCACGA-AT
23791424 GCTCTTTC-GGGA-TGTGAGTCCGG-TACATGCACTTAGCACGGAGAT
1 GCTC-TTCAGGGACT-T-AGTCCGGATACAT-CAC-TAGCAC-GA-AT
*
23791469 GCTCTT-TGGGACTTAGTCCGGATACATCACTAGCACGAAT
1 GCTCTTCAGGGACTTAGTCCGGATACATCACTAGCACGAAT
* *
23791509 GCTCTTTCGGGGACTTAG-CCTGGAATATATCACTAGCACGGAAT
1 GCTC-TTCAGGGACTTAGTCC-GG-ATACATCACTAGCAC-GAAT
* * *
23791553 -CTCTT-GGGGACTTAGTCTGGATACATCACTAGCAGGAAT
1 GCTCTTCAGGGACTTAGTCCGGATACATCACTAGCACGAAT
23791592 GCTCTTC-GGGACTTAGTAGTCCGGATACATCACTTAGCACGAAT
1 GCTCTTCAGGGAC-T--TAGTCCGGATACATCAC-TAGCACGAAT
23791636 GC-CTTCAGGGACTTAGTCCGGATACATCACTAGCACGAAT
1 GCTCTTCAGGGACTTAGTCCGGATACATCACTAGCACGAAT
23791676 GCTC-TCAGAGGACTTAG-CCTTGGATACATCACTA-CACGAAT
1 GCTCTTCAG-GGACTTAGTCC--GGATACATCACTAGCACGAAT
23791717 GCTC
1 GCTC
23791721 GTCGCACGAG
Statistics
Matches: 259, Mismatches: 12, Indels: 53
0.80 0.04 0.16
Matches are distributed among these distances:
39 4 0.02
40 47 0.18
41 56 0.22
42 38 0.15
43 60 0.23
44 46 0.18
45 8 0.03
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.25
Consensus pattern (41 bp):
GCTCTTCAGGGACTTAGTCCGGATACATCACTAGCACGAAT
Found at i:23806993 original size:21 final size:22
Alignment explanation
Indices: 23806953--23806993 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
23806943 TTCCAAATAA
* *
23806953 AACATTATATCATTTCTAATTC
1 AACATTATATCAATTATAATTC
23806975 AACATT-TATCAATTATAAT
1 AACATTATATCAATTATAAT
23806994 CGGGCATGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (22 bp):
AACATTATATCAATTATAATTC
Found at i:23830083 original size:44 final size:42
Alignment explanation
Indices: 23829993--23830103 Score: 125
Period size: 44 Copynumber: 2.6 Consensus size: 42
23829983 TTACACTGTT
* * * *
23829993 CCAGACAGGGTCTTACACAAAATCAAATACGATGTCAATGTT
1 CCAGACATGGTCTTACACAAAATCAAATACGATGCCAACGTC
*
23830035 CCAGACATGGTCTTTCACATAAATCTCAAAT-CGATGCCAACGTC
1 CCAGACATGGTCTTACACA-AAA--TCAAATACGATGCCAACGTC
* *
23830079 CCAGACGTGGTCTTACACGAAATCA
1 CCAGACATGGTCTTACACAAAATCA
23830104 CATATCTAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
41 3 0.05
42 17 0.29
43 6 0.10
44 26 0.45
45 6 0.10
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.23
Consensus pattern (42 bp):
CCAGACATGGTCTTACACAAAATCAAATACGATGCCAACGTC
Found at i:23836823 original size:20 final size:20
Alignment explanation
Indices: 23836757--23836823 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
23836747 ATTTTGATAA
* *
23836757 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATAC
*
23836777 ACATGACATGTATGATATAC
1 ACATGATATGTATGATATAC
23836797 ACATGATATGTATGATATAC
1 ACATGATATGTATGATATAC
23836817 ACATGAT
1 ACATGAT
23836824 GTATTCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATAC
Found at i:23836900 original size:24 final size:24
Alignment explanation
Indices: 23836873--23837041 Score: 241
Period size: 24 Copynumber: 7.0 Consensus size: 24
23836863 AAGGAAGTGC
*
23836873 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
23836897 AAAAGGGCTTATGCCCCAATTATT
1 AAAAGGGCTTATGCCCCAGTTATT
23836921 AAAAAGGGCTTATGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTATT
*
23836946 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
23836970 AAAAAGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
23836994 AAAAAGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
23837018 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
23837042 ATGATAAAGC
Statistics
Matches: 132, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
24 98 0.74
25 34 0.26
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:23836945 original size:49 final size:49
Alignment explanation
Indices: 23836873--23837021 Score: 246
Period size: 49 Copynumber: 3.1 Consensus size: 49
23836863 AAGGAAGTGC
* *
23836873 AAAAGGGCTTATGCCCTAGTTATTAAAAGGGCTTATGCCCCAATTATTA
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATTA
*
23836922 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATCA
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATTA
* *
23836971 AAAA-GGCTTATGCCCCAGTTATTAAAAAGGCTTTTGCCCCAGTTATTA
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATTA
23837019 AAA
1 AAA
23837022 GAGGCTAGGC
Statistics
Matches: 94, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
48 44 0.47
49 50 0.53
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (49 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATTA
Found at i:23836993 original size:73 final size:72
Alignment explanation
Indices: 23836873--23837041 Score: 250
Period size: 73 Copynumber: 2.3 Consensus size: 72
23836863 AAGGAAGTGC
* * *
23836873 AAAAGGGCTTATGCCCTAGTTATTAAAAGGGCTTATGCCCCAATTATTAAAAAGGGCTTATGCCC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAAGGCTTATGCCCCAATTATTAAAAA-GGCTTATGCCC
23836938 CAGTTATT
65 CAGTTATT
* *
23836946 AAAAGGGCTTATGCCCCAGTTATCAAAAAGGCTTATGCCCCAGTTATTAAAAAGGCTTTTGCCCC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAAGGCTTATGCCCCAATTATTAAAAAGGCTTATGCCCC
23837011 AGTTATT
66 AGTTATT
*
23837018 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
23837042 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
72 28 0.32
73 60 0.68
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAAGGCTTATGCCCCAATTATTAAAAAGGCTTATGCCCC
AGTTATT
Found at i:23837038 original size:49 final size:48
Alignment explanation
Indices: 23836873--23837041 Score: 241
Period size: 49 Copynumber: 3.5 Consensus size: 48
23836863 AAGGAAGTGC
* * *
23836873 AAAAGGGCTTATGCCCTAGTTATTAAAAGGGCTTATGCCCCAATTATT
1 AAAAAGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
*
23836921 AAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATC
1 AAAAA-GGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
* *
23836970 AAAAAGGCTTATGCCCCAGTTATTAAAAAGGCTTTTGCCCCAGTTATT
1 AAAAAGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
*
23837018 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAA-AGGCTTATGCC-CCAGTTAT
23837042 ATGATAAAGC
Statistics
Matches: 110, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
48 53 0.48
49 57 0.52
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (48 bp):
AAAAAGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
Found at i:23837270 original size:31 final size:31
Alignment explanation
Indices: 23837235--23837294 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
23837225 CGTTTACAGT
23837235 AAAGGCTTCGGCCCAGTAATATGAAATATAA
1 AAAGGCTTCGGCCCAGTAATATGAAATATAA
**
23837266 AAAGGCTTCGGCCCAGTGTTATGAAATAT
1 AAAGGCTTCGGCCCAGTAATATGAAATAT
23837295 GAAATATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATAA
Found at i:23844211 original size:25 final size:25
Alignment explanation
Indices: 23844179--23844226 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
23844169 TTATAATATG
*
23844179 AAAATGACCATTTTACCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
23844204 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
23844227 GTTTAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:23844410 original size:49 final size:48
Alignment explanation
Indices: 23844338--23844459 Score: 174
Period size: 49 Copynumber: 2.5 Consensus size: 48
23844328 GGAGGAAGTG
23844338 CAAAAGGGCTTATGCCCCAGTTATTAAAAAAGGCTTATGCCCCACTTAT
1 CAAAAGGGCTTATGCCCCAGTTATT-AAAAAGGCTTATGCCCCACTTAT
* *
23844387 CAAAAGGGCTTATGCCCCAGTTATTAAAAAGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAAAGGCTTATGCCCCACTTAT
* *
23844435 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
23844460 ATGATAAAGT
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
48 31 0.46
49 36 0.54
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (48 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAAAGGCTTATGCCCCACTTAT
Found at i:23844445 original size:25 final size:25
Alignment explanation
Indices: 23844339--23844459 Score: 160
Period size: 24 Copynumber: 5.0 Consensus size: 25
23844329 GAGGAAGTGC
23844339 AAAAG-GGCTTATGCCCCAGTTATT
1 AAAAGAGGCTTATGCCCCAGTTATT
* * *
23844363 AAAAAAGGCTTATGCCCCACTTATC
1 AAAAGAGGCTTATGCCCCAGTTATT
23844388 AAAAG-GGCTTATGCCCCAGTTATT
1 AAAAGAGGCTTATGCCCCAGTTATT
*
23844412 AAAA-AGGCTTTTGCCCCAGTTATT
1 AAAAGAGGCTTATGCCCCAGTTATT
*
23844436 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGAGGCTTATGCC-CCAGTTAT
23844460 ATGATAAAGT
Statistics
Matches: 84, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
24 51 0.61
25 33 0.39
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.27
Consensus pattern (25 bp):
AAAAGAGGCTTATGCCCCAGTTATT
Found at i:23844694 original size:31 final size:31
Alignment explanation
Indices: 23844653--23844712 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
23844643 CGTTTACAAT
23844653 AAAGGATTCGGCCCAGTAATATGAAATATAA
1 AAAGGATTCGGCCCAGTAATATGAAATATAA
* **
23844684 AAAGGCTTCGGCCCAGTGTTATGAAATAT
1 AAAGGATTCGGCCCAGTAATATGAAATAT
23844713 GAAATATGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGATTCGGCCCAGTAATATGAAATATAA
Found at i:23852539 original size:28 final size:28
Alignment explanation
Indices: 23852496--23852587 Score: 130
Period size: 28 Copynumber: 3.3 Consensus size: 28
23852486 TGGGAAGTAG
23852496 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* * *
23852524 TTGGGCATGATAGGCCATATGAATGTGT
1 TTGGGCCTGATGGGCCATATGAATGTGA
* * *
23852552 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
23852580 TTGGGCCT
1 TTGGGCCT
23852588 AAAGGGGCCA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 55 1.00
ACGTcount: A:0.21, C:0.15, G:0.36, T:0.28
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:23852942 original size:27 final size:27
Alignment explanation
Indices: 23852904--23853431 Score: 498
Period size: 27 Copynumber: 19.6 Consensus size: 27
23852894 TAATAAAGAG
* *
23852904 AAATTACTGAAATACCCTCAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
23852931 AAATTATCGAAATA-CCTCCGATTTGTA
1 AAATTACCGAAATACCCT-CGATTTGTA
* * *
23852958 AAATCACCTAAATACCATCGA-TTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
23852984 AAATTACTGAAATACCCTC-ACTTTG-A
1 AAATTACCGAAATACCCTCGA-TTTGTA
** ** *
23853010 AAATTTACTAAAATACCGGCGATTTGTG
1 AAA-TTACCGAAATACCCTCGATTTGTA
* * * *
23853038 AAATTAACGAAACACCATCTATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
23853065 AGATTATCGAAATATCCC-CGATTTGTA
1 AAATTACCGAAATA-CCCTCGATTTGTA
** * * *
23853092 AAATTATTGAAATACCATC-AATTGTG
1 AAATTACCGAAATACCCTCGATTTGTA
*
23853118 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
23853145 AAATTACTGAAATACTCC-CGATTTGTG
1 AAATTACCGAAATAC-CCTCGATTTGTA
* * *
23853172 AAATTACCAAAACACCCTCAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
23853199 AAATTATCGAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
23853226 AAATAACCGAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
23853253 AAATTACCGAAATACCCTTGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
23853280 AAATTACCGAAATACCCTCAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
23853307 AAATTATCAAAATACCCTCGATTTATA
1 AAATTACCGAAATACCCTCGATTTGTA
** *
23853334 AAATTACCGAAGCACCCTCAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
23853361 AAATTATCGAAATACCCTTG-TAGTGTA
1 AAATTACCGAAATACCCTCGAT-TTGTA
* *
23853388 AAATTACCGAAATACCCTTG-TAGTGTA
1 AAATTACCGAAATACCCTCGAT-TTGTA
* *
23853415 AAATGACCGACATACCC
1 AAATTACCGAAATACCC
23853432 CTGTAGGGTA
Statistics
Matches: 416, Mismatches: 72, Indels: 26
0.81 0.14 0.05
Matches are distributed among these distances:
25 1 0.00
26 54 0.13
27 351 0.84
28 10 0.02
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTGTA
Found at i:23853436 original size:27 final size:27
Alignment explanation
Indices: 23853357--23853448 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
23853347 ACCCTCAATT
* *
23853357 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATGACCGAAATACCCTTGTAG
*
23853384 TGTAAAATTACCGAAATACCCTTGTAG
1 TGTAAAATGACCGAAATACCCTTGTAG
* *
23853411 TGTAAAATGACCGACATACCCCTGTAG
1 TGTAAAATGACCGAAATACCCTTGTAG
*
23853438 GGTAAAATGAC
1 TGTAAAATGAC
23853449 TATTTTTCCC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.27
Consensus pattern (27 bp):
TGTAAAATGACCGAAATACCCTTGTAG
Found at i:23856209 original size:30 final size:30
Alignment explanation
Indices: 23856153--23856209 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
23856143 TATAATTTCA
* *
23856153 TTTATTTTTATTTTAATTTGGCCCTAACCT
1 TTTATTTTTATTTCAATTTAGCCCTAACCT
* *
23856183 TTTATTTTTGTTTCAATTTAGTCCTAA
1 TTTATTTTTATTTCAATTTAGCCCTAA
23856210 TGGCTATTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.58
Consensus pattern (30 bp):
TTTATTTTTATTTCAATTTAGCCCTAACCT
Found at i:23856488 original size:11 final size:11
Alignment explanation
Indices: 23856458--23856620 Score: 87
Period size: 12 Copynumber: 14.0 Consensus size: 11
23856448 TTTAAAAAAT
*
23856458 TATTATATATA
1 TATTATTTATA
* *
23856469 TTTTTATTTATG
1 -TATTATTTATA
23856481 TATTATTTATTA
1 TATTATTTA-TA
23856493 TATTATTTATA
1 TATTATTTATA
*
23856504 TTTTATTATATA
1 TATTATT-TATA
*
23856516 TTTTATTTATA
1 TATTATTTATA
*
23856527 TATTTTATTATA
1 TATTAT-TTATA
* * *
23856539 TATTAAATCATTT
1 TATT-ATTTA-TA
*
23856552 TATTATATATA
1 TATTATTTATA
*
23856563 TTATTCATTTCT-
1 -TATT-ATTTATA
*
23856575 TATTTTATTATA
1 TATTAT-TTATA
*
23856587 TATTATGTTATCT
1 TATTAT-TTAT-A
23856600 TATTATTTAT-
1 TATTATTTATA
*
23856610 TATTATATATA
1 TATTATTTATA
23856621 ATTTTAAAAT
Statistics
Matches: 116, Mismatches: 24, Indels: 23
0.71 0.15 0.14
Matches are distributed among these distances:
10 10 0.09
11 32 0.28
12 59 0.51
13 15 0.13
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (11 bp):
TATTATTTATA
Found at i:23856493 original size:30 final size:29
Alignment explanation
Indices: 23856457--23856626 Score: 118
Period size: 30 Copynumber: 5.6 Consensus size: 29
23856447 ATTTAAAAAA
23856457 TTATTATATATATTTTTATTTATGTATTAT
1 TTATTATATATATTTTTATTTAT-TATTAT
*
23856487 TTATTATAT-TATTTATATTTTATTATATATT
1 TTATTATATATATTTTTA-TTTATTAT-TA-T
* *
23856518 TTATT-TATATATTTTATTATATATTAAATCATT
1 TTATTATATATA-TTT-TTATTTATT--ATTA-T
* *
23856551 TTATTATATATATTATTCATTTCTTA-T-T
1 TTATTATATATATT-TTTATTTATTATTAT
*
23856579 TTATTATATAT-TATGTTATCTTATTATT-T
1 TTATTATATATAT-TTTTAT-TTATTATTAT
*
23856608 ATTATTATATATAATTTTA
1 -TTATTATATATATTTTTA
23856627 AAATTTACAA
Statistics
Matches: 112, Mismatches: 13, Indels: 30
0.72 0.08 0.19
Matches are distributed among these distances:
27 4 0.04
28 18 0.16
29 12 0.11
30 34 0.30
31 9 0.08
32 8 0.07
33 18 0.16
34 9 0.08
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.64
Consensus pattern (29 bp):
TTATTATATATATTTTTATTTATTATTAT
Found at i:23856497 original size:35 final size:37
Alignment explanation
Indices: 23856458--23856542 Score: 104
Period size: 35 Copynumber: 2.4 Consensus size: 37
23856448 TTTAAAAAAT
*
23856458 TATTATATATATTTTTATT-TATGTATTATTTAT-TA
1 TATTATATATATTTTTATTATATATATTATTTATATA
* *
23856493 TATTATTTATA-TTTTATTATATATTTTATTTATATA
1 TATTATATATATTTTTATTATATATATTATTTATATA
*
23856529 TTTTATTATATATT
1 TATTA-TATATATT
23856543 AAATCATTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
34 7 0.17
35 22 0.54
36 6 0.15
37 5 0.12
38 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (37 bp):
TATTATATATATTTTTATTATATATATTATTTATATA
Found at i:23856602 original size:20 final size:20
Alignment explanation
Indices: 23856574--23856612 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
23856564 TATTCATTTC
*
23856574 TTATTTTATTATATATTATG
1 TTATCTTATTATATATTATG
*
23856594 TTATCTTATTATTTATTAT
1 TTATCTTATTATATATTAT
23856613 TATATATAAT
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:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (20 bp):
TTATCTTATTATATATTATG
Found at i:23856603 original size:48 final size:46
Alignment explanation
Indices: 23856456--23856626 Score: 156
Period size: 46 Copynumber: 3.7 Consensus size: 46
23856446 CATTTAAAAA
* *
23856456 ATTATTATATATATTTTTATTTATGTATTAT-TTATTATATTATTTAT
1 ATTATTATATATA-TTTTATTTATATATTTTATTA-TATATTATTTAT
* *
23856503 ATT-TTATTATATATTTTATTTATATATTTTATTATATATTAAATCAT
1 ATTATTA-TATATATTTTATTTATATATTTTATTATATATT-ATTTAT
* *
23856550 TTTATTATATATATTATTCATTTCT-TATTTTATTATATATTATGTTAT
1 ATTATTATATATATT-TT-ATTTATATATTTTATTATATATTAT-TTAT
* *
23856598 CTTATTAT-T-TATTATTATATATA-ATTTTA
1 ATTATTATATATATT-TTATTTATATATTTTA
23856627 AAATTTACAA
Statistics
Matches: 105, Mismatches: 11, Indels: 18
0.78 0.08 0.13
Matches are distributed among these distances:
45 10 0.10
46 31 0.30
47 28 0.27
48 31 0.30
49 5 0.05
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (46 bp):
ATTATTATATATATTTTATTTATATATTTTATTATATATTATTTAT
Found at i:23856605 original size:23 final size:22
Alignment explanation
Indices: 23856456--23856620 Score: 97
Period size: 23 Copynumber: 7.0 Consensus size: 22
23856446 CATTTAAAAA
23856456 ATTATTA-TATATATT-TTTATTT
1 ATTATTATTATATATTATTTA--T
23856478 ATGTATTATTTATTATATTATTTAT
1 AT-TATTA-TTA-TATATTATTTAT
23856503 ATT-TTATTATATATTTTATTTAT
1 ATTATTATTATATA--TTATTTAT
* * *
23856526 ATATTTTATTATATATTAAATCAT
1 AT-TATTATTATATATT-ATTTAT
* *
23856550 TTTATTATATATATTATTCATTTCTT
1 ATTATTAT-TATA-TATT-ATTT-AT
23856576 ATT-TTATTATATATTATGTTAT
1 ATTATTATTATATATTAT-TTAT
* *
23856598 CTTATTATT-TATTATTATATAT
1 ATTATTATTATA-TATTATTTAT
23856620 A
1 A
23856621 ATTTTAAAAT
Statistics
Matches: 114, Mismatches: 13, Indels: 32
0.72 0.08 0.20
Matches are distributed among these distances:
21 4 0.04
22 15 0.13
23 42 0.37
24 15 0.13
25 25 0.22
26 9 0.08
27 4 0.04
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (22 bp):
ATTATTATTATATATTATTTAT
Found at i:23856949 original size:14 final size:15
Alignment explanation
Indices: 23856926--23856964 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
23856916 ATAATTTGTT
*
23856926 TATTTGTTTATTT-G
1 TATTTTTTTATTTAG
23856940 TATTTTTTTATTTAG
1 TATTTTTTTATTTAG
*
23856955 TATTGTTTTA
1 TATTTTTTTA
23856965 GTATAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.18, C:0.00, G:0.10, T:0.72
Consensus pattern (15 bp):
TATTTTTTTATTTAG
Found at i:23858565 original size:27 final size:26
Alignment explanation
Indices: 23858521--23858572 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
23858511 CTCGCTGCAA
*
23858521 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
23858548 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
23858573 GCAACCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:23858651 original size:27 final size:26
Alignment explanation
Indices: 23858613--23858672 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
23858603 ACATATATAT
* *
23858613 ATATATGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
23858639 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
23858666 ATATCTG
1 ATATCTG
23858673 GCAGCCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:23864158 original size:76 final size:77
Alignment explanation
Indices: 23864024--23864242 Score: 282
Period size: 76 Copynumber: 2.8 Consensus size: 77
23864014 GCTACTCGTT
* * *
23864024 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGA
23864089 TTTAGTAACTCGCA
65 -TTAGTAACTCGCA
*
23864103 CAAATGCCTTCGGGCTTAGCCCGAAT-TAGT-ACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCC-GA
23864166 TTAGTAACTCGCA
65 TTAGTAACTCGCA
* * * * * *
23864179 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCG
23864243 GACATCATTC
Statistics
Matches: 125, Mismatches: 10, Indels: 11
0.86 0.07 0.08
Matches are distributed among these distances:
76 55 0.44
77 16 0.13
78 13 0.10
79 33 0.26
80 8 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (77 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAT
TAGTAACTCGCA
Found at i:23864204 original size:39 final size:39
Alignment explanation
Indices: 23864024--23864244 Score: 272
Period size: 39 Copynumber: 5.7 Consensus size: 39
23864014 GCTACTCGTT
* *
23864024 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
* *
23864064 CAATTGCCTTCGGGACTTAACCC-GATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
*
23864103 CAAATGCCTTCGGG-CTTAGCCCGAATTAGT-ACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
*
23864140 CAAATGCCTTCGGGACTTAACCCGGATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
* * * *
23864179 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAAC-TCGCA
23864220 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
23864245 CATCATTCAA
Statistics
Matches: 158, Mismatches: 15, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
37 21 0.13
38 29 0.18
39 55 0.35
40 42 0.27
41 11 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:23869324 original size:40 final size:40
Alignment explanation
Indices: 23869231--23869456 Score: 264
Period size: 40 Copynumber: 5.7 Consensus size: 40
23869221 GCTACACGTT
*
23869231 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTC-GCA
* *
23869272 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
23869312 CAAATGCCTTCGGG-CTTAGCCCGGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-ATTTAGTAACTCGCA
* *
23869352 C-AATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
23869391 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
23869432 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
23869457 CATCATTCAA
Statistics
Matches: 161, Mismatches: 17, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
39 37 0.23
40 80 0.50
41 42 0.26
42 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:23869433 original size:120 final size:120
Alignment explanation
Indices: 23869233--23869456 Score: 310
Period size: 120 Copynumber: 1.9 Consensus size: 120
23869223 TACACGTTCA
* * *
23869233 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGGCACAATTGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACATAACCCGGATATAGTAACTCGGCACAAATGCCTTCGGGACTTAACCCGGA
* *
23869298 TTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAAATTAGTATCTCGCAC
66 TATAGTAACTAGCACAAA-GCCTTCGGGACTTAGCCCGGAAATTAGTATCTCGCAC
* **
23869353 AATGCCTTCGGGACTTAACCCGGATATAGTAACTC-GCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAACCCGGATATAGTAACTCGGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
23869416 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
65 ATATAGTAAC-TAGCACAAAGCCTTCGGGACTTAGCCCGGA
23869457 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
118 3 0.03
119 37 0.41
120 51 0.56
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAACCCGGATATAGTAACTCGGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTAGCACAAAGCCTTCGGGACTTAGCCCGGAAATTAGTATCTCGCAC
Found at i:23877884 original size:40 final size:41
Alignment explanation
Indices: 23877825--23877912 Score: 151
Period size: 41 Copynumber: 2.2 Consensus size: 41
23877815 TTAGCAAGAG
*
23877825 GATCAATGATAACATCCCTA-GCCGAGTTTGGGGGCTACTC
1 GATCAATGATAACAACCCTAGGCCGAGTTTGGGGGCTACTC
*
23877865 GATCAATGATAACAACCCTAGGCTGAGTTTGGGGGCTACTC
1 GATCAATGATAACAACCCTAGGCCGAGTTTGGGGGCTACTC
23877906 GATCAAT
1 GATCAAT
23877913 AGAGGAAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
40 19 0.42
41 26 0.58
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (41 bp):
GATCAATGATAACAACCCTAGGCCGAGTTTGGGGGCTACTC
Found at i:23887227 original size:90 final size:90
Alignment explanation
Indices: 23886936--23888067 Score: 1499
Period size: 90 Copynumber: 12.6 Consensus size: 90
23886926 TAGGGAACAA
* *
23886936 ATCGAAGATGACAGATTTGGCGTCTCTATATTAGAAGGGGAGCAGATCGAAGATAG-AGATCTGA
1 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
23887000 CATTCGTGTGTTTACAT-AGAAGCAG
66 CATTCGTGTGTTTACATCA-AAGCAG
* * *
23887025 ATCGAATATGACAGATTTGGCGTCTCTATATTAGAAGGGGAGCAGATCGAAGATAG-AGATCTGA
1 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
23887089 CATTCGTGTGTTTACAT-AGAAGCAG
66 CATTCGTGTGTTTACATCA-AAGCAG
* * ** *
23887114 ATCGAATATGACAGATTTGGCGTCTTTGTAAAAGACGGGGAGCAGATCGAAGATAACAGATCTGA
1 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
23887179 CATTCGTGTGTTTACATCAAAGCAG
66 CATTCGTGTGTTTACATCAAAGCAG
* *
23887204 ATCGAAGATGACAGATTTGGCGTCCCTGTATTAGACGGGGAGCAGATCGAAGATAGCAAATCTGA
1 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
* *
23887269 CATTCGTGTGTTTACATCGAAGTAG
66 CATTCGTGTGTTTACATCAAAGCAG
** * * * *
23887294 ATAAAAAATGACAGATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGATAGCAGATCTAA
1 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
* *
23887359 CATTTGTGTGTTTACATCGAAGCAG
66 CATTCGTGTGTTTACATCAAAGCAG
*
23887384 ATCGAAAATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
1 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
* *
23887449 CATTTGTGTGTTTACGTCGAAA-CAG
66 CATTCGTGTGTTTACATC-AAAGCAG
* * ** * *
23887474 ATCGAAGATGACAGATTTGAC-TGTCTGTATTAGACAAGGAGCAGATCAAAGATAGCAAATCTGA
1 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
* *
23887538 CATTCATGTGTTTACATTGAAA-CAG
66 CATTCGTGTGTTTACA-TCAAAGCAG
* * *
23887563 ATTGAAGATGATAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
1 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
**
23887628 CATTCGTGTGTTTACATTGAAGCAG
66 CATTCGTGTGTTTACATCAAAGCAG
* * * * * *
23887653 ATCGAAGATGACATATTTGGCATCTCTGTATTGGACAGGGAGCAGATCAAAGATAGCAGATCTAA
1 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
**
23887718 CATTCGTGTGTTTACATTGAAGCAG
66 CATTCGTGTGTTTACATCAAAGCAG
* * * *
23887743 ATCGAAGATGACAGATTTTGTGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAAATCTGA
1 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
* * *
23887808 CATTCGTGTGTTTATATCGAAGTAG
66 CATTCGTGTGTTTACATCAAAGCAG
* * * * * * *
23887833 ATCAAAGATGACAGATTTGGCGTTTCTATATTAGACAGGGAGTAGATCTAAGATAGTAGATCTGA
1 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
* *
23887898 GATTCATGTGTTTACATCGAAA-CAG
66 CATTCGTGTGTTTACATC-AAAGCAG
* * * *
23887923 ATCGAAGATGACTGATTTGGTGTCTCTATATTAGACGGGGAACAGATCGAAGATAGCAGATCTGA
1 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
* *
23887988 CATTTGTGTGTTTACATCGAAGCAG
66 CATTCGTGTGTTTACATCAAAGCAG
* * * *
23888013 ATCGAAGAT-AGCAGATTTGGCGTCTCTGTATTTGACGGGGAACAGCTCAAAGATA
1 ATCGAAGATGA-CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATA
23888068 TTAACATGGC
Statistics
Matches: 924, Mismatches: 110, Indels: 17
0.88 0.10 0.02
Matches are distributed among these distances:
89 219 0.24
90 700 0.76
91 5 0.01
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.27
Consensus pattern (90 bp):
ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
CATTCGTGTGTTTACATCAAAGCAG
Found at i:23887780 original size:449 final size:447
Alignment explanation
Indices: 23886936--23888067 Score: 1561
Period size: 449 Copynumber: 2.5 Consensus size: 447
23886926 TAGGGAACAA
* *
23886936 ATCGAAGATGACAGATTTGGCGTCTCTATATTAGAAGGGGAGCAGATCGAAGATAGAGATCTGAC
1 ATCGAAAATGACAGATTTGGCGTCTCTATATTAGACGGGGAGCAGATCGAAGATAGAGATCTGAC
* * * *
23887001 ATTCGTGTGTTTACATAGAAGCAGATCGAATATGACAGATTTGGCGTCTCTATATTAGA-AGGGG
66 ATTCGTGTGTTTACATCGAAACAGATCGAAGATGACAGATTT-GC-TGTCTATATTAGACA-GGG
*
23887065 AGCAGATCGAAGATAG-AGATCTGACATTCGTGTGTTTACATAGAAGCAGATCGAATATGACAGA
128 AGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTTTACATAGAAGCAGATCGAAGATGACAGA
* **
23887129 TTTGGCGTCTTTGTAAAAGACGGGGAGCAGATCGAAGATAACAGATCTGACATTCGTGTGTTTAC
193 TTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAGATCTGACATTCGTGTGTTTAC
* * *
23887194 ATCAAAGCAGATCGAAGATGACAGATTTGGCGTCCCTGTATTAGACGGGGAGCAGATCGAAGATA
258 ATCAAAGCAGATCGAAGATGACAGATTTGGCATCCCTGTATTAGACAGGGAGCAGATCAAAGATA
* *
23887259 GCAAATCTGACATTCGTGTGTTTACATCGAAGTAGATAAAAAATGACAGATTTGGCATCTCTATA
323 GCAAATCTAACATTCGTGTGTTTACATCGAAGCAGATAAAAAATGACAGATTTGGCATCTCTATA
* * *
23887324 TTAGACGGGGAGCAGATCGAAGATAGCAGATCTAACATTTGTGTGTTTACATCGAAGCAG
388 TTAGACGGGGAGCAGATCGAAGATAACAAATCTAACATTCGTGTGTTTACATCGAAGCAG
*
23887384 ATCGAAAATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
1 ATCGAAAATGACAGATTTGGCGTCTCTATATTAGACGGGGAGCAGATCGAAGATAG-AGATCTGA
* * * *
23887449 CATTTGTGTGTTTACGTCGAAACAGATCGAAGATGACAGATTTGACTGTCTGTATTAGACAAGGA
65 CATTCGTGTGTTTACATCGAAACAGATCGAAGATGACAGATTTG-CTGTCTATATTAGACAGGGA
* * * * * * *
23887514 GCAGATCAAAGATAGCAAATCTGACATTCATGTGTTTACATTGAAACAGATTGAAGATGATAGAT
129 GCAGATCGAAGATAGCAGATCTGACATTCGTGTGTTTACATAGAAGCAGATCGAAGATGACAGAT
* *
23887579 TTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTTTACA
194 TTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAGATCTGACATTCGTGTGTTTACA
** * * *
23887644 TTGAAGCAGATCGAAGATGACATATTTGGCATCTCTGTATTGGACAGGGAGCAGATCAAAGATAG
259 TCAAAGCAGATCGAAGATGACAGATTTGGCATCCCTGTATTAGACAGGGAGCAGATCAAAGATAG
* * ** * * ** *
23887709 CAGATCTAACATTCGTGTGTTTACATTGAAGCAGATCGAAGATGACAGATTTTGTGTCTCTGTAT
324 CAAATCTAACATTCGTGTGTTTACATCGAAGCAGATAAAAAATGACAGATTTGGCATCTCTATAT
* * *
23887774 TAGACGGGGAGCAGATCGAAGATAACAAATCTGACATTCGTGTGTTTATATCGAAGTAG
389 TAGACGGGGAGCAGATCGAAGATAACAAATCTAACATTCGTGTGTTTACATCGAAGCAG
* * * *
23887833 ATC-AAAGATGACAGATTTGGCGTTTCTATATTAGACAGGGAGTAGATCTAAGATAGTAGATCTG
1 ATCGAAA-ATGACAGATTTGGCGTCTCTATATTAGACGGGGAGCAGATCGAAGATAG-AGATCTG
* * * * *
23887897 AGATTCATGTGTTTACATCGAAACAGATCGAAGATGACTGATTTGGTGTCTCTATATTAGACGGG
64 ACATTCGTGTGTTTACATCGAAACAGATCGAAGATGACAGATTTGCTG--TCTATATTAGACAGG
* * *
23887962 GAACAGATCGAAGATAGCAGATCTGACATTTGTGTGTTTACATCGAAGCAGATCGAAGAT-AGCA
127 GAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTTTACATAGAAGCAGATCGAAGATGA-CA
* * * *
23888026 GATTTGGCGTCTCTGTATTTGACGGGGAACAGCTCAAAGATA
191 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATA
23888068 TTAACATGGC
Statistics
Matches: 598, Mismatches: 78, Indels: 14
0.87 0.11 0.02
Matches are distributed among these distances:
448 87 0.15
449 409 0.68
450 102 0.17
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.27
Consensus pattern (447 bp):
ATCGAAAATGACAGATTTGGCGTCTCTATATTAGACGGGGAGCAGATCGAAGATAGAGATCTGAC
ATTCGTGTGTTTACATCGAAACAGATCGAAGATGACAGATTTGCTGTCTATATTAGACAGGGAGC
AGATCGAAGATAGCAGATCTGACATTCGTGTGTTTACATAGAAGCAGATCGAAGATGACAGATTT
GGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAGATCTGACATTCGTGTGTTTACATC
AAAGCAGATCGAAGATGACAGATTTGGCATCCCTGTATTAGACAGGGAGCAGATCAAAGATAGCA
AATCTAACATTCGTGTGTTTACATCGAAGCAGATAAAAAATGACAGATTTGGCATCTCTATATTA
GACGGGGAGCAGATCGAAGATAACAAATCTAACATTCGTGTGTTTACATCGAAGCAG
Found at i:23888066 original size:45 final size:45
Alignment explanation
Indices: 23886898--23888067 Score: 247
Period size: 45 Copynumber: 26.1 Consensus size: 45
23886888 GTAGATCACT
* * ** *
23886898 GATAACAGATTTGGCATCTCTGTA-TTGATAGGGAACAAATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTTGACGGGGAACAGATCGAA
* * * *
23886942 GAT-GACAGATTTGGCGTCTCTATATTAGAAGGGGAGCAGATCGAA
1 GATAG-CAGATTTGGCGTCTCTGTATTTGACGGGGAACAGATCGAA
* * * * ***
23886987 GATAG-AGATCTGACAT-TCGTGTGTTT-ACATAGAAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTC-TGTATTTGACGGGGAA-CAGATCGAA
* * * * *
23887031 TAT-GACAGATTTGGCGTCTCTATATTAGAAGGGGAGCAGATCGAA
1 GATAG-CAGATTTGGCGTCTCTGTATTTGACGGGGAACAGATCGAA
* * * * ***
23887076 GATAG-AGATCTGACAT-TCGTGTGTTT-ACATAGAAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTC-TGTATTTGACGGGGAA-CAGATCGAA
* * *** *
23887120 TAT-GACAGATTTGGCGTCTTTGTAAAAGACGGGGAGCAGATCGAA
1 GATAG-CAGATTTGGCGTCTCTGTATTTGACGGGGAACAGATCGAA
* * * * * ****
23887165 GATAACAGATCTGACAT-TCGTGTGTTT-ACATCAAAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTC-TGTATTTGACGGGGAA-CAGATCGAA
* * *
23887210 GAT-GACAGATTTGGCGTCCCTGTATTAGACGGGGAGCAGATCGAA
1 GATAG-CAGATTTGGCGTCTCTGTATTTGACGGGGAACAGATCGAA
* * * * * *** * **
23887255 GATAGCAAATCTGACAT-TCGTGTGTTT-ACATCGAAGTAGATAAAA
1 GATAGCAGATTTGGCGTCTC-TGTATTTGACGGGGAA-CAGATCGAA
* * * * *
23887300 AAT-GACAGATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAA
1 GATAG-CAGATTTGGCGTCTCTGTATTTGACGGGGAACAGATCGAA
* ** * * * * ***
23887345 GATAGCAGATCTAACATTTGTGTGTTT-ACATCGAAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTTGACGGGGAA-CAGATCGAA
* * *
23887390 AAT-GACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAA
1 GATAG-CAGATTTGGCGTCTCTGTATTTGACGGGGAACAGATCGAA
* * * * * * * *
23887435 GATAGCAGATCTGACATTTGTGTGTTT-ACGTCGAAACAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTTGACG-GGGAACAGATCGAA
* * * ** * *
23887480 GAT-GACAGATTTGAC-TGTCTGTATTAGACAAGGAGCAGATCAAA
1 GATAG-CAGATTTGGCGTCTCTGTATTTGACGGGGAACAGATCGAA
* * * * * ** * *
23887524 GATAGCAAATCTGACAT-TCATGTGTTT-ACATTGAAACAGATTGAA
1 GATAGCAGATTTGGCGTCTC-TGTATTTGAC-GGGGAACAGATCGAA
* * * *
23887569 GAT-GATAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAA
1 GATAG-CAGATTTGGCGTCTCTGTATTTGACGGGGAACAGATCGAA
* * * * ***
23887614 GATAGCAGATCTGACAT-TCGTGTGTTT-ACATTGAAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTC-TGTATTTGACGGGGAA-CAGATCGAA
* * * * * *
23887659 GAT-GACATATTTGGCATCTCTGTATTGGACAGGGAGCAGATCAAA
1 GATAG-CAGATTTGGCGTCTCTGTATTTGACGGGGAACAGATCGAA
* ** * * ***
23887704 GATAGCAGATCTAACAT-TCGTGTGTTT-ACATTGAAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTC-TGTATTTGACGGGGAA-CAGATCGAA
* * * *
23887749 GAT-GACAGATTTTGTGTCTCTGTATTAGACGGGGAGCAGATCGAA
1 GATAG-CAGATTTGGCGTCTCTGTATTTGACGGGGAACAGATCGAA
* * * * * * **** * *
23887794 GATAACAAATCTGACAT-TCGTGTGTTT-ATATCGAAGTAGATCAAA
1 GATAGCAGATTTGGCGTCTC-TGTATTTGACGGGGAA-CAGATCGAA
* * * * ** *
23887839 GAT-GACAGATTTGGCGTTTCTATATTAGACAGGGAGTAGATCTAA
1 GATAG-CAGATTTGGCGTCTCTGTATTTGACGGGGAACAGATCGAA
* * * * ** *
23887884 GATAGTAGATCTGAG-AT-TCATGTGTTT-ACATCGAAACAGATCGAA
1 GATAGCAGATTTG-GCGTCTC-TGTATTTGAC-GGGGAACAGATCGAA
* * * *
23887929 GAT-GACTGATTTGGTGTCTCTATATTAGACGGGGAACAGATCGAA
1 GATAG-CAGATTTGGCGTCTCTGTATTTGACGGGGAACAGATCGAA
* * * * * * ***
23887974 GATAGCAGATCTGACATTTGTGTGTTT-ACATCGAAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTTGACGGGGAA-CAGATCGAA
* *
23888019 GATAGCAGATTTGGCGTCTCTGTATTTGACGGGGAACAGCTCAAA
1 GATAGCAGATTTGGCGTCTCTGTATTTGACGGGGAACAGATCGAA
23888064 GATA
1 GATA
23888068 TTAACATGGC
Statistics
Matches: 761, Mismatches: 293, Indels: 143
0.64 0.24 0.12
Matches are distributed among these distances:
43 12 0.02
44 149 0.20
45 534 0.70
46 66 0.09
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.27
Consensus pattern (45 bp):
GATAGCAGATTTGGCGTCTCTGTATTTGACGGGGAACAGATCGAA
Found at i:23889558 original size:31 final size:30
Alignment explanation
Indices: 23889502--23889564 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
23889492 AATCCTTTTT
*
23889502 AAATTTTTTATATATAATTTATTTATT-TA
1 AAATGTTTTATATATAATTTATTTATTATA
*
23889531 AAATGTTTTATATATCATTTATTTTTATTATA
1 AAATGTTTTATATATAATTTA--TTTATTATA
23889563 AA
1 AA
23889565 CATTATTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 19 0.66
31 6 0.21
32 4 0.14
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (30 bp):
AAATGTTTTATATATAATTTATTTATTATA
Found at i:23889618 original size:11 final size:11
Alignment explanation
Indices: 23889588--23889673 Score: 82
Period size: 12 Copynumber: 7.5 Consensus size: 11
23889578 TTTAAAAAAT
*
23889588 TATTATATATA
1 TATTATTTATA
* *
23889599 TTTTTATTTATG
1 -TATTATTTATA
*
23889611 TATTATTTTTTA
1 TATTA-TTTATA
23889623 TATTATTTATA
1 TATTATTTATA
23889634 TATTATTATATA
1 TATTATT-TATA
*
23889646 TTTTATTTATA
1 TATTATTTATA
*
23889657 TATTTTATTATA
1 TATTAT-TTATA
23889669 TATTA
1 TATTA
23889674 AATCATTTTA
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
11 24 0.40
12 36 0.60
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (11 bp):
TATTATTTATA
Found at i:23889652 original size:81 final size:81
Alignment explanation
Indices: 23889509--23889661 Score: 184
Period size: 81 Copynumber: 1.9 Consensus size: 81
23889499 TTTAAATTTT
* *
23889509 TTATATATAATTTATTTATTTAAAATGTTTTATATATCATTTATTTTTATTATAAACATTATTTA
1 TTATATATAATTTATTTATGTAAAATGTTTTATATATCATTTATTATTATTATAAACATTATTTA
23889574 TACATTTAAAAAATTA
66 TACATTTAAAAAATTA
* ** * * **
23889590 TTATATATATTTTTATTTATGTATTAT-TTTT-TATATTATTTATATATTATTATATATTTTATT
1 TTATATATA-ATTTATTTATGTAAAATGTTTTATATATCATTTAT-TATTATTATAAACATTATT
*
23889653 TATATATTT
64 TATACATTT
23889662 TATTATATAT
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
80 11 0.18
81 36 0.60
82 13 0.22
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (81 bp):
TTATATATAATTTATTTATGTAAAATGTTTTATATATCATTTATTATTATTATAAACATTATTTA
TACATTTAAAAAATTA
Found at i:23889668 original size:23 final size:24
Alignment explanation
Indices: 23889586--23889744 Score: 107
Period size: 23 Copynumber: 6.5 Consensus size: 24
23889576 CATTTAAAAA
*
23889586 ATTATTATATATATTTTTATTTATGT
1 ATTATTAT-TATA-TTTTATTTATAT
* *
23889612 ATTATT-TTTTATATTATTTATAT
1 ATTATTATTATATTTTATTTATAT
23889635 ATTATTA-TATATTTTATTTATAT
1 ATTATTATTATATTTTATTTATAT
* *
23889658 ATT-TTATTATATATTA--AATCAT
1 ATTATTATTATATTTTATTTAT-AT
* *
23889680 TTTATTATATATATTATTCATTTCT-T
1 ATTATTAT-TATATT-TT-ATTTATAT
* *
23889706 ATT-TTATTATATATTATGTTATCTT
1 ATTATTATTATATTTTAT-TTAT-AT
23889731 ATTATTTATTATAT
1 ATTA-TTATTATAT
23889745 ATAATTTTAA
Statistics
Matches: 105, Mismatches: 14, Indels: 27
0.72 0.10 0.18
Matches are distributed among these distances:
21 2 0.02
22 9 0.09
23 50 0.48
24 13 0.12
25 11 0.10
26 10 0.10
27 9 0.09
28 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (24 bp):
ATTATTATTATATTTTATTTATAT
Found at i:23889697 original size:32 final size:30
Alignment explanation
Indices: 23889587--23889747 Score: 106
Period size: 32 Copynumber: 5.4 Consensus size: 30
23889577 ATTTAAAAAA
* * *
23889587 TTATTATATATATTTTTATTTATGTATTATT
1 TTATTATATATATTATTATATAT-TAATATT
23889618 TT-TTATAT-TATT-TATATATTATTATATATT
1 TTATTATATATATTAT-TATA-TATTA-ATATT
*
23889648 TTATTTATATATTTTATTATATATTAAATCATT
1 TTA-TTATATATATTATTATATATT-AAT-ATT
* **
23889681 TTATTATATATATTATT-CAT-TTCTTATT
1 TTATTATATATATTATTATATATTAATATT
* *
23889709 TTA-T-TATATATTATGT-TATCTTATTA-T
1 TTATTATATATATTAT-TATATATTAATATT
23889736 TTATTATATATA
1 TTATTATATATA
23889748 ATTTTAAAAA
Statistics
Matches: 108, Mismatches: 9, Indels: 28
0.74 0.06 0.19
Matches are distributed among these distances:
26 10 0.09
27 8 0.07
28 13 0.12
29 16 0.15
30 17 0.16
31 4 0.04
32 25 0.23
33 14 0.13
34 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.64
Consensus pattern (30 bp):
TTATTATATATATTATTATATATTAATATT
Found at i:23889732 original size:20 final size:20
Alignment explanation
Indices: 23889704--23889742 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
23889694 TATTCATTTC
*
23889704 TTATTTTATTATATATTATG
1 TTATCTTATTATATATTATG
*
23889724 TTATCTTATTATTTATTAT
1 TTATCTTATTATATATTAT
23889743 ATATAATTTT
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:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (20 bp):
TTATCTTATTATATATTATG
Found at i:23893460 original size:29 final size:28
Alignment explanation
Indices: 23893379--23893500 Score: 136
Period size: 28 Copynumber: 4.3 Consensus size: 28
23893369 ACTACATGGC
* * * **
23893379 TATGAGTGTGATTGGACCTGACAGGCCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
* * *
23893407 TATGAAAGTGATTGGGCTTGATGGGCCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
23893435 TATGAATGTGATTTGGGCCTAATGGGCCA
1 TATGAATGTGA-TTGGGCCTAATGGGCCA
* *
23893464 TATGAATGAGATTGGGCCTAGTGGGCCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
*
23893492 TATGCATGT
1 TATGAATGT
23893501 ATGTAGACTT
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 55 0.69
29 25 0.31
ACGTcount: A:0.25, C:0.14, G:0.33, T:0.29
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTAATGGGCCA
Found at i:23895598 original size:19 final size:19
Alignment explanation
Indices: 23895561--23895598 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
23895551 CTAATTAAGT
*
23895561 TTTAATTAGATGAATTTAG
1 TTTAATTAGATGAAATTAG
23895580 TTTAATTAAGA-GAAATTAG
1 TTTAATT-AGATGAAATTAG
23895599 GAAAAAAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (19 bp):
TTTAATTAGATGAAATTAG
Found at i:23895785 original size:29 final size:29
Alignment explanation
Indices: 23895762--23895818 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
23895752 TATTATTTTT
*
23895762 ATTATTTTATTATATTATAAATTAAATTG
1 ATTATATTATTATATTATAAATTAAATTG
*
23895791 ATTATATTATTATATTATAAAATAAATT
1 ATTATATTATTATATTATAAATTAAATT
23895819 AAGAAAAGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (29 bp):
ATTATATTATTATATTATAAATTAAATTG
Found at i:23895804 original size:8 final size:8
Alignment explanation
Indices: 23895747--23895808 Score: 51
Period size: 8 Copynumber: 8.0 Consensus size: 8
23895737 AATTATAAAA
23895747 TATATTAT
1 TATATTAT
*
23895755 TATTTTTAT
1 TA-TATTAT
*
23895764 TATTTTAT
1 TATATTAT
23895772 TATATTA-
1 TATATTAT
23895779 TA-A--AT
1 TATATTAT
*
23895784 TAAATTGAT
1 TATATT-AT
23895793 TATATTAT
1 TATATTAT
23895801 TATATTAT
1 TATATTAT
23895809 AAAATAAATT
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
4 1 0.02
5 2 0.04
6 2 0.04
7 2 0.04
8 24 0.53
9 14 0.31
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (8 bp):
TATATTAT
Found at i:23895943 original size:30 final size:32
Alignment explanation
Indices: 23895877--23895948 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 32
23895867 AAATGAGTAC
23895877 ATTTGTATTATTTATATATAATTAGTAAAAAGAT
1 ATTT-TATTATTTATATATAATTAGT-AAAAGAT
*
23895911 ATTTTATTATTTAT-TATTAATTAGTAAAATAT
1 ATTTTATTATTTATATA-TAATTAGTAAAAGAT
23895943 -TTTTAT
1 ATTTTAT
23895949 ATGATAAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
31 6 0.17
32 8 0.22
33 18 0.50
34 4 0.11
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (32 bp):
ATTTTATTATTTATATATAATTAGTAAAAGAT
Found at i:23896078 original size:20 final size:21
Alignment explanation
Indices: 23896053--23896105 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
23896043 ATTAAATAAA
23896053 TATTTAAT-A-ATTATTATTAT
1 TATTTAATGATATTA-TATTAT
23896073 TATTTAATTGATATTATATTAT
1 TATTTAA-TGATATTATATTAT
23896095 TATATTAATGA
1 TAT-TTAATGA
23896106 ATAAATTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
20 7 0.24
21 1 0.03
22 13 0.45
23 8 0.28
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.57
Consensus pattern (21 bp):
TATTTAATGATATTATATTAT
Found at i:23896113 original size:25 final size:24
Alignment explanation
Indices: 23896059--23896103 Score: 67
Period size: 22 Copynumber: 1.9 Consensus size: 24
23896049 TAAATATTTA
23896059 ATAATTATTATTATTATTTAATTG
1 ATAATTATTATTATTATTTAATTG
23896083 AT-ATTA-TATTATTATATTAAT
1 ATAATTATTATTATTAT-TTAAT
23896104 GAATAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 9 0.45
23 9 0.45
24 2 0.10
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (24 bp):
ATAATTATTATTATTATTTAATTG
Found at i:23897261 original size:47 final size:47
Alignment explanation
Indices: 23897162--23897253 Score: 114
Period size: 47 Copynumber: 2.0 Consensus size: 47
23897152 CCTTGTGTAT
* ** * *
23897162 CGTACTGTTACTGTTACTTCGGTTTAATCCGATGAGGTACTAAGTAC
1 CGTACTATTACTGTTACTTCGGTCAAAGCCGATGAGGCACTAAGTAC
*
23897209 CGTACTATTACTGTTTACTTCGG-CAAAGCCGATGAGGCATTAAGT
1 CGTACTATTACTG-TTACTTCGGTCAAAGCCGATGAGGCACTAAGT
23897254 GCTGTACTGG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
47 29 0.76
48 9 0.24
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.34
Consensus pattern (47 bp):
CGTACTATTACTGTTACTTCGGTCAAAGCCGATGAGGCACTAAGTAC
Found at i:23897373 original size:21 final size:19
Alignment explanation
Indices: 23897321--23897376 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 19
23897311 AGGGGTACAC
23897321 TACTGTACTGAATAACTAA
1 TACTGTACTGAATAACTAA
*
23897340 TAGTTGT--TGAATAACTAAA
1 TA-CTGTACTGAATAACT-AA
23897359 TTACTGTACTGAATAACT
1 -TACTGTACTGAATAACT
23897377 GATTGTTATC
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
18 9 0.30
19 7 0.23
20 5 0.17
21 9 0.30
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (19 bp):
TACTGTACTGAATAACTAA
Found at i:23902916 original size:28 final size:29
Alignment explanation
Indices: 23902837--23902921 Score: 127
Period size: 29 Copynumber: 3.0 Consensus size: 29
23902827 GCATGACTAT
*
23902837 GAATGTGATTTGGGCTTAATGGGCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
*
23902866 GAATGTGATTTGGGCCTAATGGGCCATAG
1 GAATGTGATTTGGGCCTAATGGGCCATAC
* *
23902895 GAATGAGA-TTGGGCCTAGTGGGCCATA
1 GAATGTGATTTGGGCCTAATGGGCCATA
23902922 TGCATGAATG
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 18 0.35
29 34 0.65
ACGTcount: A:0.25, C:0.14, G:0.34, T:0.27
Consensus pattern (29 bp):
GAATGTGATTTGGGCCTAATGGGCCATAC
Found at i:23905962 original size:37 final size:37
Alignment explanation
Indices: 23905917--23905991 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
23905907 TATGAAATTT
23905917 ATGGAGAATCATGCATGTTATTGGTAGCCATATAGGA
1 ATGGAGAATCATGCATGTTATTGGTAGCCATATAGGA
23905954 ATGGAGAATCATGCATGTTATTGGTAGCCATATAGGA
1 ATGGAGAATCATGCATGTTATTGGTAGCCATATAGGA
23905991 A
1 A
23905992 CTTGCAGGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.29
Consensus pattern (37 bp):
ATGGAGAATCATGCATGTTATTGGTAGCCATATAGGA
Found at i:23912170 original size:42 final size:42
Alignment explanation
Indices: 23912075--23912170 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 42
23912065 CATATCTTGG
* * * *
23912075 ATATGGTCTTACATGAAATATCATATCGATGCCATGTCCCTA
1 ATATGGTCTTATATGAAACATCATACCGATGCCATATCCCTA
*
23912117 ACATGGTCTTATATGAAACCA-CATACCGATGCCATATCCC-A
1 ATATGGTCTTATATGAAA-CATCATACCGATGCCATATCCCTA
23912158 TATATGGTCTTAT
1 -ATATGGTCTTAT
23912171 TCAGAATCTC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
41 1 0.02
42 44 0.96
43 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (42 bp):
ATATGGTCTTATATGAAACATCATACCGATGCCATATCCCTA
Found at i:23914980 original size:21 final size:21
Alignment explanation
Indices: 23914954--23914997 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
23914944 CATTAGAGTT
23914954 AGCTAACATTTTCCCAACATA
1 AGCTAACATTTTCCCAACATA
**
23914975 AGCTAACATTTTTGCAACATA
1 AGCTAACATTTTCCCAACATA
23914996 AG
1 AG
23914998 AACTTTATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.30
Consensus pattern (21 bp):
AGCTAACATTTTCCCAACATA
Found at i:23915785 original size:48 final size:48
Alignment explanation
Indices: 23915733--23915849 Score: 137
Period size: 48 Copynumber: 2.4 Consensus size: 48
23915723 TAGTCCAACT
* * *
23915733 ATGGTCTTACACGA-AGTCTCATATCGGTGCCAAAGCCATGTCTCAAAC
1 ATGGTCTTACACGAGA-TCACATATCGATGCCAAAGCCATGTCCCAAAC
* * * *
23915781 ATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGAC
1 ATGGTCTTACACGAGATCACATATCGATGCCAAAGCCATGTCCCAAAC
* *
23915829 ATGGTCTTACATGGGATCACA
1 ATGGTCTTACACGAGATCACA
23915850 GTGCCATAGC
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
48 60 0.98
49 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (48 bp):
ATGGTCTTACACGAGATCACATATCGATGCCAAAGCCATGTCCCAAAC
Found at i:23915892 original size:37 final size:36
Alignment explanation
Indices: 23915813--23915913 Score: 125
Period size: 37 Copynumber: 2.8 Consensus size: 36
23915803 ATCGATGCCA
*
23915813 ATGCCAT-GTCCCAGAC-ATGGTCTTACATGGGATCAC
1 ATGCCATAG-CCCAG-CTATGGTCTTACATGGCATCAC
* *
23915849 AGTGCCATAGCCCAGCTATGGTCTTACATGTCATTAC
1 A-TGCCATAGCCCAGCTATGGTCTTACATGGCATCAC
23915886 GATGCCATAGCCCAGCTATGGTCTTACA
1 -ATGCCATAGCCCAGCTATGGTCTTACA
23915914 CGTACTCAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
36 2 0.03
37 54 0.93
38 2 0.03
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.27
Consensus pattern (36 bp):
ATGCCATAGCCCAGCTATGGTCTTACATGGCATCAC
Found at i:23919724 original size:29 final size:29
Alignment explanation
Indices: 23919680--23919798 Score: 100
Period size: 29 Copynumber: 4.2 Consensus size: 29
23919670 GAAAGCATGT
* *
23919680 ATATGAATGTGGTTTGGGCCTAATAGGCC
1 ATATGAATATGATTTGGGCCTAATAGGCC
** *
23919709 ATATGAATATGATTTGGGTTTAATGGGCC
1 ATATGAATATGATTTGGGCCTAATAGGCC
* * * * *
23919738 ATACGTATGTGATTCGGACCTAATAGGCC
1 ATATGAATATGATTTGGGCCTAATAGGCC
* *
23919767 ATATGAATGA-GA-TTGGG-CTAGTGGGCC
1 ATATGAAT-ATGATTTGGGCCTAATAGGCC
23919794 ATATG
1 ATATG
23919799 CATGTATGTA
Statistics
Matches: 69, Mismatches: 20, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
27 13 0.19
28 3 0.04
29 53 0.77
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (29 bp):
ATATGAATATGATTTGGGCCTAATAGGCC
Found at i:23920826 original size:58 final size:58
Alignment explanation
Indices: 23920757--23920891 Score: 243
Period size: 58 Copynumber: 2.3 Consensus size: 58
23920747 TGAACATAGG
*
23920757 TTTCCTAAATCATAGTTTGTTTTCTACGTTTCCGCAACTTAATATTAAAATGACAGGT
1 TTTCATAAATCATAGTTTGTTTTCTACGTTTCCGCAACTTAATATTAAAATGACAGGT
*
23920815 TTTCATAAATCATAGTTTGTTTTCTATGTTTCCGCAACTTAATATTAAAATGACAGGT
1 TTTCATAAATCATAGTTTGTTTTCTACGTTTCCGCAACTTAATATTAAAATGACAGGT
23920873 TTTCATAAATCATACGTTT
1 TTTCATAAATCATA-GTTT
23920892 TAAACAAGCT
Statistics
Matches: 74, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
58 70 0.95
59 4 0.05
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (58 bp):
TTTCATAAATCATAGTTTGTTTTCTACGTTTCCGCAACTTAATATTAAAATGACAGGT
Found at i:23927500 original size:28 final size:29
Alignment explanation
Indices: 23927437--23927549 Score: 158
Period size: 28 Copynumber: 4.0 Consensus size: 29
23927427 GCATGTATAT
* *
23927437 GAATGTAATTTGGGCATAATGGGCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
*
23927466 GAATGTGATTTGGGCCTAA-GGGTCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
*
23927494 GAATGTGATTTGGGCCTAATGGGCCATAT
1 GAATGTGATTTGGGCCTAATGGGCCATAC
* *
23927523 GAATGAGA-TTGGGCCTAGTGGGCCATA
1 GAATGTGATTTGGGCCTAATGGGCCATA
23927550 TGCATGTATG
Statistics
Matches: 76, Mismatches: 7, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
28 45 0.59
29 31 0.41
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (29 bp):
GAATGTGATTTGGGCCTAATGGGCCATAC
Found at i:23932893 original size:27 final size:27
Alignment explanation
Indices: 23932813--23932933 Score: 93
Period size: 27 Copynumber: 4.4 Consensus size: 27
23932803 TAAAATTTGT
23932813 AAAATAGGGGAAAATTTTGTAAAAT-TTGA
1 AAAATAGGGGAAAA--TTGTAAAATCTT-A
* * * *
23932842 AAAATAGAGGCAAAACTATATAATCTTA
1 AAAATAG-GGGAAAATTGTAAAATCTTA
23932870 AAAATAGGGGAAAATTGTAAAATC-TA
1 AAAATAGGGGAAAATTGTAAAATCTTA
*** * *
23932896 GAAAATAGGTTCAAATTGTAAATTCTAA
1 -AAAATAGGGGAAAATTGTAAAATCTTA
*
23932924 AAAATGGGGG
1 AAAATAGGGG
23932934 GAAAGTTTTA
Statistics
Matches: 72, Mismatches: 16, Indels: 10
0.73 0.16 0.10
Matches are distributed among these distances:
26 2 0.03
27 40 0.56
28 15 0.21
29 9 0.12
30 6 0.08
ACGTcount: A:0.50, C:0.05, G:0.19, T:0.26
Consensus pattern (27 bp):
AAAATAGGGGAAAATTGTAAAATCTTA
Found at i:23934230 original size:20 final size:22
Alignment explanation
Indices: 23934185--23934230 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
23934175 ATATACATTT
*
23934185 TAATTTTATAAAATATTTAATT
1 TAATTTTATAAAATATTTAATA
23934207 TAATTTTATAAAA-A-TTAATA
1 TAATTTTATAAAATATTTAATA
23934227 TAAT
1 TAAT
23934231 ATAAAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.39
21 1 0.04
22 13 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TAATTTTATAAAATATTTAATA
Found at i:23936298 original size:35 final size:38
Alignment explanation
Indices: 23936238--23936311 Score: 127
Period size: 35 Copynumber: 2.0 Consensus size: 38
23936228 GAAATAAATG
23936238 AGTGTTTTTTTTTTGTATACAAATGAATGAAAATTTTA
1 AGTGTTTTTTTTTTGTATACAAATGAATGAAAATTTTA
23936276 AGTGTTTTTTTTTT-T-TAC-AATGAATGAAAATTTTA
1 AGTGTTTTTTTTTTGTATACAAATGAATGAAAATTTTA
23936311 A
1 A
23936312 CATTATGTCC
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
35 18 0.50
36 3 0.08
37 1 0.03
38 14 0.39
ACGTcount: A:0.34, C:0.03, G:0.12, T:0.51
Consensus pattern (38 bp):
AGTGTTTTTTTTTTGTATACAAATGAATGAAAATTTTA
Found at i:23941429 original size:22 final size:21
Alignment explanation
Indices: 23941392--23941538 Score: 73
Period size: 20 Copynumber: 7.1 Consensus size: 21
23941382 ATCACCCCAA
*
23941392 TTTT-ATTTTATTTTATTTAT
1 TTTTAATTTTATATTATTTAT
23941412 TTTTAATTATTATATTATTTAT
1 TTTTAATT-TTATATTATTTAT
*
23941434 TTTT-ATTTTACTA--ATTAAT
1 TTTTAATTTTA-TATTATTTAT
*
23941453 TAATT-ATTCTTATACTTA-TT-T
1 T-TTTAATT-TTATA-TTATTTAT
* *
23941474 TTTTAATTTTAATTTTTTTATAT
1 TTTTAATTTT-ATATTATT-TAT
* **
23941497 TTTTAATTTTTTA-TATACAT
1 TTTTAATTTTATATTATTTAT
23941517 TTATT-ATTTT-TATT-TTTAT
1 TT-TTAATTTTATATTATTTAT
23941536 TTT
1 TTT
23941539 GCTATTTCTA
Statistics
Matches: 98, Mismatches: 14, Indels: 32
0.68 0.10 0.22
Matches are distributed among these distances:
18 1 0.01
19 13 0.13
20 30 0.31
21 23 0.23
22 19 0.19
23 12 0.12
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTAATTTTATATTATTTAT
Found at i:23941492 original size:16 final size:17
Alignment explanation
Indices: 23941471--23941518 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
23941461 CTTATACTTA
23941471 TTTTTT-TAATTTTAAT
1 TTTTTTATAATTTTAAT
*
23941487 TTTTTTATATTTTTAAT
1 TTTTTTATAATTTTAAT
23941504 TTTTTATATACATTT
1 TTTTT-TATA-ATTT
23941519 ATTATTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 6 0.22
17 14 0.52
18 4 0.15
19 3 0.11
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTTTATAATTTTAAT
Found at i:23941500 original size:17 final size:16
Alignment explanation
Indices: 23941468--23941538 Score: 74
Period size: 15 Copynumber: 4.4 Consensus size: 16
23941458 ATTCTTATAC
23941468 TTATTTTTTTA-ATTT
1 TTATTTTTTTATATTT
*
23941483 TAATTTTTTTATATTT
1 TTATTTTTTTATATTT
**
23941499 TTAATTTTTTATATACAT
1 TT-ATTTTTT-TATATTT
*
23941517 TTATTATTTT-TATTT
1 TTATTTTTTTATATTT
23941532 TTATTTT
1 TTATTTT
23941539 GCTATTTCTA
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
15 19 0.42
16 6 0.13
17 13 0.29
18 7 0.16
ACGTcount: A:0.24, C:0.01, G:0.00, T:0.75
Consensus pattern (16 bp):
TTATTTTTTTATATTT
Found at i:23945040 original size:25 final size:25
Alignment explanation
Indices: 23945012--23945062 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
23945002 AATTTTATTT
*
23945012 TTTGCTTTT-CTTCTCCTAATTAAGC
1 TTTGCTTTTACTT-TCCCAATTAAGC
* *
23945037 TTTGTTTTTACTTTCCCACTTAAGC
1 TTTGCTTTTACTTTCCCAATTAAGC
23945062 T
1 T
23945063 CTAATTAACC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 19 0.86
26 3 0.14
ACGTcount: A:0.16, C:0.24, G:0.08, T:0.53
Consensus pattern (25 bp):
TTTGCTTTTACTTTCCCAATTAAGC
Found at i:23951600 original size:43 final size:43
Alignment explanation
Indices: 23951526--23951680 Score: 238
Period size: 43 Copynumber: 3.6 Consensus size: 43
23951516 GTGAAAAAAC
* **
23951526 GCCGCTATAGAACATGACCTTTAGCAACGCTTTTCCCACAAAG
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAAG
* *
23951569 GCTGCTAAAGAACATGACCTTTAGTGGCGCTTTTCCCACAAAG
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAAG
* *
23951612 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTACCACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAAG
*
23951655 GCCCCTAAAGAACATGACCTTTAGCG
1 GCCGCTAAAGAACATGACCTTTAGCG
23951681 TGTTGATAGT
Statistics
Matches: 102, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 102 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.23
Consensus pattern (43 bp):
GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAAG
Found at i:23953216 original size:790 final size:790
Alignment explanation
Indices: 23951695--23953239 Score: 3045
Period size: 790 Copynumber: 2.0 Consensus size: 790
23951685 GATAGTTTAA
23951695 TTAAAATTATGTAATGCTACAAAAGTATGGATTAGTTTAATTAAAATTGTTAAGTGTTGATAGTT
1 TTAAAATTATGTAATGCTACAAAAGTATGGATTAGTTTAATTAAAATTGTTAAGTGTTGATAGTT
23951760 GTGGATGAAATTATGATTTTTATTTAAAATTTTTATTCGTTTTACTTTGACCACTCATCAAGACG
66 GTGGATGAAATTATGATTTTTATTTAAAATTTTTATTCGTTTTACTTTGACCACTCATCAAGACG
23951825 ACTTGATGATTATATTTACAGGTACCATGTCATCTTCACGTGGTAAAAAGGCCGCTGTCCTTGCT
131 ACTTGATGATTATATTTACAGGTACCATGTCATCTTCACGTGGTAAAAAGGCCGCTGTCCTTGCT
23951890 TCAAAGAAAAGAAAGGGAGAGTCATCTTCCTCGAGTCCTATCGCGAAAGTTCGTCACCATTTCTT
196 TCAAAGAAAAGAAAGGGAGAGTCATCTTCCTCGAGTCCTATCGCGAAAGTTCGTCACCATTTCTT
23951955 GAGGTTTCCCATCGGGCCCCAAGAAGAACTATTCCAAATACTCTGGACCCGACCTTAATTACGGG
261 GAGGTTTCCCATCGGGCCCCAAGAAGAACTATTCCAAATACTCTGGACCCGACCTTAATTACGGG
23952020 CCACTGCATCGACTGGGCTGCAGTACAACAAGTTCAATTGGCTGAAGCGATTCGGGCCCTCCTAA
326 CCACTGCATCGACTGGGCTGCAGTACAACAAGTTCAATTGGCTGAAGCGATTCGGGCCCTCCTAA
23952085 CCACTGACCCTTAGGAGCTTTTCTTTGGGATCAACGAGCTGACGTATATCTAGCTTATGATGGAA
391 CCACTGACCCTTAGGAGCTTTTCTTTGGGATCAACGAGCTGACGTATATCTAGCTTATGATGGAA
23952150 TTATGCTCTCAACCGCCACATCCATCGTTCTCCTTCATGGTGCTGGGACGCACTAGTACCAAGTG
456 TTATGCTCTCAACCGCCACATCCATCGTTCTCCTTCATGGTGCTGGGACGCACTAGTACCAAGTG
23952215 GGGCCACCTACAATCCTATCCGCTACAAGGCATCGGCTCTCCCTCCATCTCTGAGGTACCTACAC
521 GGGCCACCTACAATCCTATCCGCTACAAGGCATCGGCTCTCCCTCCATCTCTGAGGTACCTACAC
23952280 GCCATTTTGGCTCACAGATTACAGGATGGTGAGAGAGGACCGGTGTCGTCAACACTCACGACGCC
586 GCCATTTTGGCTCACAGATTACAGGATGGTGAGAGAGGACCGGTGTCGTCAACACTCACGACGCC
23952345 TACTTTTTATGGTGTATGTCACACGGGCACGTCATCAACCTTGCCTATTTCATTGCCCTCGCGAT
651 TACTTTTTATGGTGTATGTCACACGGGCACGTCATCAACCTTGCCTATTTCATTGCCCTCGCGAT
23952410 TTAGCACCAGACGGAGTGGCATAGGAAAGGGGTCATCTCCCTAAAGAACATGACCTTTAGCCCCA
716 TTAGCACCAGACGGAGTGGCATAGGAAAGGGGTCATCTCCCTAAAGAACATGACCTTTAGCCCCA
23952475 CAAAGGCCGC
781 CAAAGGCCGC
23952485 TTAAAATTATGTAATGCTACAAAAGTATGGATTAGTTTAATTAAAATTGTTAAGTGTTGATAGTT
1 TTAAAATTATGTAATGCTACAAAAGTATGGATTAGTTTAATTAAAATTGTTAAGTGTTGATAGTT
*
23952550 GTGGCTGAAATTATGATTTTTATTTAAAATTTTTATTCGTTTTACTTTGACCACTCATCAAGACG
66 GTGGATGAAATTATGATTTTTATTTAAAATTTTTATTCGTTTTACTTTGACCACTCATCAAGACG
23952615 ACTTGATGATTATATTTACAGGTACCATGTCATCTTCACGTGGTAAAAAGGCCGCTGTCCTTGCT
131 ACTTGATGATTATATTTACAGGTACCATGTCATCTTCACGTGGTAAAAAGGCCGCTGTCCTTGCT
*
23952680 TCAAAGAAAAGGAAGGGAGAGTCATCTTCCTCGAGTCCTATCGCGAAAGTTCGTCACCATTTCTT
196 TCAAAGAAAAGAAAGGGAGAGTCATCTTCCTCGAGTCCTATCGCGAAAGTTCGTCACCATTTCTT
*
23952745 GAGGTTTCCCATCGGGCCCGAAGAAGAACTATTCCAAATACTCTGGACCCGACCTTAATTACGGG
261 GAGGTTTCCCATCGGGCCCCAAGAAGAACTATTCCAAATACTCTGGACCCGACCTTAATTACGGG
23952810 CCACTGCATCGACTGGGCTGCAGTACAACAAGTTCAATTGGCTGAAGCGATTCGGGCCCTCCTAA
326 CCACTGCATCGACTGGGCTGCAGTACAACAAGTTCAATTGGCTGAAGCGATTCGGGCCCTCCTAA
23952875 CCACTGACCCTTAGGAGCTTTTCTTTGGGATCAACGAGCTGACGTATATCTAGCTTATGATGGAA
391 CCACTGACCCTTAGGAGCTTTTCTTTGGGATCAACGAGCTGACGTATATCTAGCTTATGATGGAA
23952940 TTATGCTCTCAACCGCCACATCCATCGTTCTCCTTCATGGTGCTGGGACGCACTAGTACCAAGTG
456 TTATGCTCTCAACCGCCACATCCATCGTTCTCCTTCATGGTGCTGGGACGCACTAGTACCAAGTG
23953005 GGGCCACCTACAATCCTATCCGCTACAAGGCATCGGCTCTCCCTCCATCTCTGAGGTACCTACAC
521 GGGCCACCTACAATCCTATCCGCTACAAGGCATCGGCTCTCCCTCCATCTCTGAGGTACCTACAC
23953070 GCCATTTTGGCTCACAGATTACAGGATGGTGAGAGAGGACCGGTGTCGTCAACACTCACGACGCC
586 GCCATTTTGGCTCACAGATTACAGGATGGTGAGAGAGGACCGGTGTCGTCAACACTCACGACGCC
* *
23953135 TATTTTTTATGGTGTATGTCACACGGGTACGTCATCAACCTTGCCTATTTCATTGCCCTCGCGAT
651 TACTTTTTATGGTGTATGTCACACGGGCACGTCATCAACCTTGCCTATTTCATTGCCCTCGCGAT
23953200 TTAGCACCAGACGGAGTGGCATAGGAAAGGGGTCATCTCC
716 TTAGCACCAGACGGAGTGGCATAGGAAAGGGGTCATCTCC
23953240 ATTGGCCCCT
Statistics
Matches: 750, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
790 750 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (790 bp):
TTAAAATTATGTAATGCTACAAAAGTATGGATTAGTTTAATTAAAATTGTTAAGTGTTGATAGTT
GTGGATGAAATTATGATTTTTATTTAAAATTTTTATTCGTTTTACTTTGACCACTCATCAAGACG
ACTTGATGATTATATTTACAGGTACCATGTCATCTTCACGTGGTAAAAAGGCCGCTGTCCTTGCT
TCAAAGAAAAGAAAGGGAGAGTCATCTTCCTCGAGTCCTATCGCGAAAGTTCGTCACCATTTCTT
GAGGTTTCCCATCGGGCCCCAAGAAGAACTATTCCAAATACTCTGGACCCGACCTTAATTACGGG
CCACTGCATCGACTGGGCTGCAGTACAACAAGTTCAATTGGCTGAAGCGATTCGGGCCCTCCTAA
CCACTGACCCTTAGGAGCTTTTCTTTGGGATCAACGAGCTGACGTATATCTAGCTTATGATGGAA
TTATGCTCTCAACCGCCACATCCATCGTTCTCCTTCATGGTGCTGGGACGCACTAGTACCAAGTG
GGGCCACCTACAATCCTATCCGCTACAAGGCATCGGCTCTCCCTCCATCTCTGAGGTACCTACAC
GCCATTTTGGCTCACAGATTACAGGATGGTGAGAGAGGACCGGTGTCGTCAACACTCACGACGCC
TACTTTTTATGGTGTATGTCACACGGGCACGTCATCAACCTTGCCTATTTCATTGCCCTCGCGAT
TTAGCACCAGACGGAGTGGCATAGGAAAGGGGTCATCTCCCTAAAGAACATGACCTTTAGCCCCA
CAAAGGCCGC
Found at i:23956702 original size:41 final size:40
Alignment explanation
Indices: 23956602--23956750 Score: 124
Period size: 40 Copynumber: 3.6 Consensus size: 40
23956592 CTTTTATCAA
* * * *
23956602 ATCACCGGCATTTAGCCTGCTAGGTTTTAATCCCGAATTC
1 ATCATCGGCATTTAGCCTGCTAGGCTTTAATCCAGAACTC
**
23956642 ATCATCGGCACGTAGCCTGCTAGGCTTTAAGT-CAGAACTC
1 ATCATCGGCATTTAGCCTGCTAGGCTTTAA-TCCAGAACTC
* * *
23956682 ATTCATCGGCATTTCA-CCTGCTAGGCTTGAAGCCCGATA-TC
1 A-TCATCGGCATTT-AGCCTGCTAGGCTTTAATCCAGA-ACTC
*
23956723 ATTTCACCGGCATTATAGCCTGCTAGGC
1 A--TCATCGGCATT-TAGCCTGCTAGGC
23956751 CCGAAGCCCG
Statistics
Matches: 89, Mismatches: 12, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
40 33 0.37
41 31 0.35
42 14 0.16
43 11 0.12
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (40 bp):
ATCATCGGCATTTAGCCTGCTAGGCTTTAATCCAGAACTC
Found at i:23956750 original size:43 final size:41
Alignment explanation
Indices: 23956603--23956793 Score: 156
Period size: 43 Copynumber: 4.6 Consensus size: 41
23956593 TTTTATCAAA
* * * *
23956603 TCACCGGCATTTAGCCTGCTAGGTTTTAATCCCGAATTCA-
1 TCACCGGCATTTAGCCTGCTAGGCTTGAAGCCCGAACTCAT
* ** * * *
23956643 TCATCGGCACGTAGCCTGCTAGGCTTTAAGTCAGAACTCAT
1 TCACCGGCATTTAGCCTGCTAGGCTTGAAGCCCGAACTCAT
*
23956684 TCATCGGCATTTCA-CCTGCTAGGCTTGAAGCCCGATA-TCATT
1 TCACCGGCATTT-AGCCTGCTAGGCTTGAAGCCCGA-ACTCA-T
** *
23956726 TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA-TTAT
1 TCACCGGCATT-TAGCCTGCTAGGCTTGAAGCCCGA-ACTCAT
*
23956768 CTCACCGGTATTATAGCCTGCTAGGC
1 -TCACCGGCATT-TAGCCTGCTAGGC
23956794 CCGAAGCTCG
Statistics
Matches: 126, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
40 32 0.25
41 31 0.25
42 15 0.12
43 48 0.38
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (41 bp):
TCACCGGCATTTAGCCTGCTAGGCTTGAAGCCCGAACTCAT
Found at i:23956794 original size:43 final size:43
Alignment explanation
Indices: 23956698--23956806 Score: 164
Period size: 43 Copynumber: 2.5 Consensus size: 43
23956688 CGGCATTTCA
** *
23956698 CCTGCTAGGCTTGAAGCCCGATATCATTTCACCGGCATTATAG
1 CCTGCTAGGCCCGAAGCCCGATATCATCTCACCGGCATTATAG
* *
23956741 CCTGCTAGGCCCGAAGCCCGATATTATCTCACCGGTATTATAG
1 CCTGCTAGGCCCGAAGCCCGATATCATCTCACCGGCATTATAG
*
23956784 CCTGCTAGGCCCGAAGCTCGATA
1 CCTGCTAGGCCCGAAGCCCGATA
23956807 ATATTATTCA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (43 bp):
CCTGCTAGGCCCGAAGCCCGATATCATCTCACCGGCATTATAG
Found at i:23957513 original size:64 final size:64
Alignment explanation
Indices: 23957412--23957541 Score: 260
Period size: 64 Copynumber: 2.0 Consensus size: 64
23957402 CAAAACACAA
23957412 ACAACACTTATCAAAGTCATGTAATTTACACACTTCACATGGCACTACTACATTCATTAACCTT
1 ACAACACTTATCAAAGTCATGTAATTTACACACTTCACATGGCACTACTACATTCATTAACCTT
23957476 ACAACACTTATCAAAGTCATGTAATTTACACACTTCACATGGCACTACTACATTCATTAACCTT
1 ACAACACTTATCAAAGTCATGTAATTTACACACTTCACATGGCACTACTACATTCATTAACCTT
23957540 AC
1 AC
23957542 TTTCATACAA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.31
Consensus pattern (64 bp):
ACAACACTTATCAAAGTCATGTAATTTACACACTTCACATGGCACTACTACATTCATTAACCTT
Found at i:23958825 original size:14 final size:15
Alignment explanation
Indices: 23958796--23958825 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
23958786 CAAAATTTAG
23958796 ACATGATACTTTCAC
1 ACATGATACTTTCAC
23958811 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
23958825 A
1 A
23958826 TATTATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:23962656 original size:33 final size:34
Alignment explanation
Indices: 23962588--23962656 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
23962578 TAGCAATATC
* *
23962588 AGTGTGGGCCTCAGCCCATGACGGTAACAGTATT
1 AGTGTGGGCCTCAGCCAATGACAGTAACAGTATT
*
23962622 AGTGTGGGCCTTAGCCTAAT-ACAGT-ACAGTATT
1 AGTGTGGGCCTCAGCC-AATGACAGTAACAGTATT
23962655 AG
1 AG
23962657 AGATGCAAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 10 0.32
34 19 0.61
35 2 0.06
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (34 bp):
AGTGTGGGCCTCAGCCAATGACAGTAACAGTATT
Found at i:23977854 original size:29 final size:29
Alignment explanation
Indices: 23977794--23977877 Score: 118
Period size: 28 Copynumber: 3.0 Consensus size: 29
23977784 ACCTATATAT
* *
23977794 ATATGGCCCACTAGGCCC-AATCTCTTTC
1 ATATGGCCCACTAGGCCCAAATCACATTC
* *
23977822 ATATGGCCCATTAGGCCCAAATCAGATTC
1 ATATGGCCCACTAGGCCCAAATCACATTC
23977851 ATATGG-CCACTAGGCCCAAATCACATT
1 ATATGGCCCACTAGGCCCAAATCACATT
23977878 TACAGTCATG
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
28 36 0.73
29 13 0.27
ACGTcount: A:0.29, C:0.31, G:0.15, T:0.25
Consensus pattern (29 bp):
ATATGGCCCACTAGGCCCAAATCACATTC
Found at i:23978126 original size:16 final size:16
Alignment explanation
Indices: 23978084--23978136 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
23978074 CATAGCCAAA
* *
23978084 ATTTGGGCTATTCGGC
1 ATTTGAGCTTTTCGGC
*
23978100 ATTTTAGCTTTTCGGC
1 ATTTGAGCTTTTCGGC
*
23978116 ATTTCGA-CTTTTCGGG
1 ATTT-GAGCTTTTCGGC
23978132 ATTTG
1 ATTTG
23978137 CCGATCTACT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
15 1 0.03
16 29 0.94
17 1 0.03
ACGTcount: A:0.13, C:0.17, G:0.25, T:0.45
Consensus pattern (16 bp):
ATTTGAGCTTTTCGGC
Found at i:23985109 original size:40 final size:40
Alignment explanation
Indices: 23985063--23985142 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
23985053 CATACAATTC
* ** *
23985063 AGATAATTATAACAAGATCTGTTTTAGGTTTCATTCCCCT
1 AGATAATAATAACAAGATCCATCTTAGGTTTCATTCCCCT
*
23985103 AGATAATAATAACAAGATCCATCTTAGGTTTCATTTCCCT
1 AGATAATAATAACAAGATCCATCTTAGGTTTCATTCCCCT
23985143 TAGGTATTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.38
Consensus pattern (40 bp):
AGATAATAATAACAAGATCCATCTTAGGTTTCATTCCCCT
Found at i:23993845 original size:40 final size:40
Alignment explanation
Indices: 23993801--23993985 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 40
23993791 CTTGCGCAAG
* * *
23993801 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
23993841 GCCTTCGGGACTTAGCCCAGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
23993881 GCCTTCAGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
23993921 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
23993962 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
23993986 CATTCGAATA
Statistics
Matches: 119, Mismatches: 23, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
39 1 0.01
40 89 0.75
41 29 0.24
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:23998637 original size:14 final size:14
Alignment explanation
Indices: 23998618--23998654 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
23998608 CATAATATCC
23998618 AAATAGTAACAATA
1 AAATAGTAACAATA
*
23998632 AAATAGTAGCAATA
1 AAATAGTAACAATA
*
23998646 TAATAGTAA
1 AAATAGTAA
23998655 AATGGTAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.59, C:0.05, G:0.11, T:0.24
Consensus pattern (14 bp):
AAATAGTAACAATA
Found at i:23999843 original size:31 final size:31
Alignment explanation
Indices: 23999805--23999876 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
23999795 AATTTTGGGT
*
23999805 CCACATGCCTGTGTGGCTTGCCCATGTGAGC
1 CCACATGCCCGTGTGGCTTGCCCATGTGAGC
23999836 CCACATGCCCGTGTGGCTTGCCCATGTGAGC
1 CCACATGCCCGTGTGGCTTGCCCATGTGAGC
*
23999867 CCACACGCCC
1 CCACATGCCC
23999877 AACTTGGCCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.14, C:0.39, G:0.26, T:0.21
Consensus pattern (31 bp):
CCACATGCCCGTGTGGCTTGCCCATGTGAGC
Found at i:24002928 original size:64 final size:64
Alignment explanation
Indices: 24002847--24003030 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
24002837 AGACATTATG
* *
24002847 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
** * * * * *
24002911 ATGTAGCTAGGTCGCATGCATGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
24002976 AA
63 AA
* * * *
24002978 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
24003031 CGAACTATAT
Statistics
Matches: 96, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 20 0.21
65 8 0.08
66 15 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:24007055 original size:21 final size:22
Alignment explanation
Indices: 24007029--24007070 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
24007019 TAATAACCAT
24007029 ACCAAATTAAGG-TTGGAACAC
1 ACCAAATTAAGGCTTGGAACAC
24007050 ACCAAATTAAGGCTTGGAACA
1 ACCAAATTAAGGCTTGGAACA
24007071 AGGTACTACT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (22 bp):
ACCAAATTAAGGCTTGGAACAC
Found at i:24007730 original size:5 final size:5
Alignment explanation
Indices: 24007720--24007744 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
24007710 CCTAACCCCA
24007720 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
24007745 CTTCTTCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:24011409 original size:20 final size:20
Alignment explanation
Indices: 24011380--24011424 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
24011370 AGCACATGTA
* *
24011380 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
24011400 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
24011420 TTCAT
1 TTCAT
24011425 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:24011498 original size:46 final size:46
Alignment explanation
Indices: 24011444--24011541 Score: 187
Period size: 46 Copynumber: 2.1 Consensus size: 46
24011434 TAAATCATGT
24011444 TTTCATCAAAAATCACTTTGTAAAAGTTGTTTATCTTTCAACAATC
1 TTTCATCAAAAATCACTTTGTAAAAGTTGTTTATCTTTCAACAATC
*
24011490 TTTCATCAAAAATCACTTTGTAAAAGTTGTTTATCTTTCAATAATC
1 TTTCATCAAAAATCACTTTGTAAAAGTTGTTTATCTTTCAACAATC
24011536 TTTCAT
1 TTTCAT
24011542 TTTCTACCAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 51 1.00
ACGTcount: A:0.34, C:0.16, G:0.06, T:0.44
Consensus pattern (46 bp):
TTTCATCAAAAATCACTTTGTAAAAGTTGTTTATCTTTCAACAATC
Found at i:24023199 original size:43 final size:43
Alignment explanation
Indices: 24023044--24023199 Score: 170
Period size: 43 Copynumber: 3.6 Consensus size: 43
24023034 GTTACCGAGA
* * * *
24023044 TGTGATTACTTGTAAGACCATGTCTGAGACATTGGCGTCATAT
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCATCATAT
* * *
24023087 TGTGATTACGTGTAAGACCATGTCTAGGACATTGGCATCATAT
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCATCATAT
* * * * *
24023130 TATGATTTCCTGTAAGACCCTATCTGGGACAGTGGCATCGATA-
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCATC-ATAT
* *
24023173 TGTGATAACATGTAGGACCATATCTGG
1 TGTGATTACATGTAAGACCATATCTGG
24023200 AATATGGCAT
Statistics
Matches: 95, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
43 92 0.97
44 3 0.03
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATATCTGGGACATTGGCATCATAT
Found at i:24026100 original size:63 final size:64
Alignment explanation
Indices: 24026020--24026202 Score: 203
Period size: 66 Copynumber: 2.8 Consensus size: 64
24026010 AGACATTATG
* *
24026020 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACG-GATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
24026083 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
24026148 AA
63 AA
* * *
24026150 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
24026203 GAACTATATG
Statistics
Matches: 99, Mismatches: 15, Indels: 12
0.79 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 43 0.43
64 1 0.01
65 2 0.02
66 45 0.45
67 7 0.07
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:24033567 original size:35 final size:35
Alignment explanation
Indices: 24033526--24033598 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
24033516 AAGCATACCT
24033526 ACATAATTAACCCTTAGTGAACCCCTTTGAGCCTA
1 ACATAATTAACCCTTAGTGAACCCCTTTGAGCCTA
24033561 ACATAATTAACCCTTAGTGAACCCCTTTGAGCCTA
1 ACATAATTAACCCTTAGTGAACCCCTTTGAGCCTA
24033596 ACA
1 ACA
24033599 CACCGTTTCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.33, C:0.29, G:0.11, T:0.27
Consensus pattern (35 bp):
ACATAATTAACCCTTAGTGAACCCCTTTGAGCCTA
Found at i:24054942 original size:28 final size:26
Alignment explanation
Indices: 24054881--24054942 Score: 61
Period size: 28 Copynumber: 2.3 Consensus size: 26
24054871 AAAAGGGAAG
*
24054881 ACTATAAAACCTAAAAATAGGAGAAA
1 ACTATAAAACCTAAAAATAGGACAAA
* * **
24054907 ATTGTAAAATGTAAGAAATAGGGACAAA
1 ACTATAAAACCTAA-AAATA-GGACAAA
24054935 ACTATAAA
1 ACTATAAA
24054943 TTTTGAGTTA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
26 10 0.37
27 5 0.19
28 12 0.44
ACGTcount: A:0.58, C:0.08, G:0.15, T:0.19
Consensus pattern (26 bp):
ACTATAAAACCTAAAAATAGGACAAA
Done.