Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 139 of 235
Found at i:46814771 original size:26 final size:26
Alignment explanation
Indices: 46814735--46814870 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
46814725 TGATACAAAT
46814735 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
46814761 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
46814787 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
46814813 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
46814839 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
46814865 TGATAA
1 TGATAA
46814871 GAATTTCATG
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 107 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:46816531 original size:27 final size:27
Alignment explanation
Indices: 46816488--46816629 Score: 187
Period size: 27 Copynumber: 5.3 Consensus size: 27
46816478 TGGAGGAAGC
*
46816488 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
* *
46816515 GATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
*
46816542 GTTCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
* *
46816569 GTTCTGGTGGCTCTGCCACGATTATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
* * *
46816596 GTATCTGGTGACTCTGTCAC-ATTATCT
1 GT-TCTGGTGGCTCTGCCACAAATATCT
46816623 GTTCTGG
1 GTTCTGG
46816630 CAGCCATGCT
Statistics
Matches: 105, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
26 5 0.05
27 85 0.81
28 15 0.14
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (27 bp):
GTTCTGGTGGCTCTGCCACAAATATCT
Found at i:46816575 original size:54 final size:54
Alignment explanation
Indices: 46816488--46816629 Score: 207
Period size: 54 Copynumber: 2.6 Consensus size: 54
46816478 TGGAGGAAGC
* * *
46816488 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCAC-ATATATCT
1 GTTCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGAT-TATCT
46816542 GTTCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCT
1 GTTCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCT
* *
46816596 GTATCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 GT-TCTGGTGGCTCTGCCACATATATCTGTTCTGG
46816630 CAGCCATGCT
Statistics
Matches: 81, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
54 62 0.77
55 19 0.23
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCT
Found at i:46825645 original size:13 final size:13
Alignment explanation
Indices: 46825627--46825651 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46825617 GCTTCTCGCC
46825627 TTGTTCTCTGTTT
1 TTGTTCTCTGTTT
46825640 TTGTTCTCTGTT
1 TTGTTCTCTGTT
46825652 CTTGGCTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.16, G:0.16, T:0.68
Consensus pattern (13 bp):
TTGTTCTCTGTTT
Found at i:46833945 original size:120 final size:120
Alignment explanation
Indices: 46833730--46833964 Score: 364
Period size: 120 Copynumber: 2.0 Consensus size: 120
46833720 CACATTAAAA
* * * * * *
46833730 ATCATTGTCGGAAGAGATTAAATCAAGATGATGGAGAATTTCAAGTAACACAATGAACATGTAAT
1 ATCATTGTCGGAAGACATTAAATCAAAACGATGAAAAATTTCAAGTAACACAATGAACACGTAAT
* *
46833795 AAGGACATCTTAATAATATAATGAGCCATCTTATTTGAATCATGAAACGACCAAT
66 AAGGACATCTTAATAAGATAATGAGCCATCTTATTTGAATCACGAAACGACCAAT
*
46833850 ATCATTGTTGGAAGACATTAAATCAAAACGATGAAAAATTTCAAGTAACACAAT-AAGCACGTAA
1 ATCATTGTCGGAAGACATTAAATCAAAACGATGAAAAATTTCAAGTAACACAATGAA-CACGTAA
*
46833914 TAAGGACATCTTAATAAGATAATGAGTCATCTTATTTGAATCACGAAACGA
65 TAAGGACATCTTAATAAGATAATGAGCCATCTTATTTGAATCACGAAACGA
46833965 TGAATAAAAT
Statistics
Matches: 104, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
119 2 0.02
120 102 0.98
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.27
Consensus pattern (120 bp):
ATCATTGTCGGAAGACATTAAATCAAAACGATGAAAAATTTCAAGTAACACAATGAACACGTAAT
AAGGACATCTTAATAAGATAATGAGCCATCTTATTTGAATCACGAAACGACCAAT
Found at i:46835793 original size:20 final size:20
Alignment explanation
Indices: 46835768--46835812 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
46835758 GTCACAAAAT
46835768 AGTCATCTGGGTTTCATTTC
1 AGTCATCTGGGTTTCATTTC
46835788 AGTCATCTGGGTTTCATTTC
1 AGTCATCTGGGTTTCATTTC
46835808 AGTCA
1 AGTCA
46835813 CCCAACTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.42
Consensus pattern (20 bp):
AGTCATCTGGGTTTCATTTC
Found at i:46838028 original size:20 final size:20
Alignment explanation
Indices: 46838003--46838046 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
46837993 TCAAAGTTGA
*
46838003 GTGACTGAAATAAAACCCAG
1 GTGACTGAAATAAAACACAG
*
46838023 GTGACTGAAATGAAACACAG
1 GTGACTGAAATAAAACACAG
46838043 GTGA
1 GTGA
46838047 TTGTTTTGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.43, C:0.16, G:0.25, T:0.16
Consensus pattern (20 bp):
GTGACTGAAATAAAACACAG
Found at i:46847394 original size:22 final size:22
Alignment explanation
Indices: 46847351--46847394 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
46847341 TCTCAACCAG
*
46847351 TCATACAATTCAAATACAATTC
1 TCATACAATTCAAAAACAATTC
*
46847373 TCATACCAATT-AAAAACCATTC
1 TCATA-CAATTCAAAAACAATTC
46847395 AAATACATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (22 bp):
TCATACAATTCAAAAACAATTC
Found at i:46854372 original size:26 final size:26
Alignment explanation
Indices: 46854336--46854388 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
46854326 CAAGATATGA
*
46854336 TTGTACAAATGTTCATGGTGTAGCCT
1 TTGTACAAATGTTCATAGTGTAGCCT
*
46854362 TTGTACGAATGTTCATAGTGTAGCCT
1 TTGTACAAATGTTCATAGTGTAGCCT
46854388 T
1 T
46854389 CGATAATGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.40
Consensus pattern (26 bp):
TTGTACAAATGTTCATAGTGTAGCCT
Found at i:46856147 original size:24 final size:24
Alignment explanation
Indices: 46856115--46856163 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
46856105 CTCGAAAGAA
46856115 GAAAAAACTATCATCAACAAAAAT
1 GAAAAAACTATCATCAACAAAAAT
46856139 GAAAAAACTATCATCAACAAAAAT
1 GAAAAAACTATCATCAACAAAAAT
46856163 G
1 G
46856164 TGGGAAACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.61, C:0.16, G:0.06, T:0.16
Consensus pattern (24 bp):
GAAAAAACTATCATCAACAAAAAT
Found at i:46857394 original size:23 final size:23
Alignment explanation
Indices: 46857367--46857417 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
46857357 TTTAAATTTT
*
46857367 GAGTTAA-TCAAATTAAGTTATTC
1 GAGTTAACTCAAA-TAAGTAATTC
*
46857390 GAGTTAACTCAAATAAGTAATTT
1 GAGTTAACTCAAATAAGTAATTC
46857413 GAGTT
1 GAGTT
46857418 CTTTAGTTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.37
Consensus pattern (23 bp):
GAGTTAACTCAAATAAGTAATTC
Found at i:46857595 original size:18 final size:19
Alignment explanation
Indices: 46857547--46857599 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
46857537 AAAAATTACA
46857547 AAAAATTCAAAATAATTTT
1 AAAAATTCAAAATAATTTT
*
46857566 TAAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
46857585 AAAAATT-AAAA-AATT
1 AAAAATTCAAAATAATT
46857600 ATATCTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 11 0.37
19 19 0.63
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:46863194 original size:30 final size:30
Alignment explanation
Indices: 46863161--46863551 Score: 739
Period size: 30 Copynumber: 13.0 Consensus size: 30
46863151 CATATTTATG
*
46863161 GAAAA-TCAAAGATATGGGTATCAAATAAT
1 GAAAAGTCAAAGATATGGGTATCAAATATT
*
46863190 GGAAAGTCAAAGATATGGGTATCAAATATT
1 GAAAAGTCAAAGATATGGGTATCAAATATT
46863220 GAAAAGTCAAAGATATGGGTATCAAATATT
1 GAAAAGTCAAAGATATGGGTATCAAATATT
46863250 GAAAAGTCAAAGATATGGGTATCAAATATT
1 GAAAAGTCAAAGATATGGGTATCAAATATT
46863280 GAAAAGTCAAAGATATGGGTATCAAATATT
1 GAAAAGTCAAAGATATGGGTATCAAATATT
46863310 GAAAAGTCAAAGATATGGGTATCAAATATT
1 GAAAAGTCAAAGATATGGGTATCAAATATT
46863340 GAAAAGTCAAAGATATGGGTATCAAATATT
1 GAAAAGTCAAAGATATGGGTATCAAATATT
46863370 GAAAAGTCAAAGATATGGGTATCAAATATT
1 GAAAAGTCAAAGATATGGGTATCAAATATT
46863400 GAAAAGTCAAAGATATGGGTATCAAATATT
1 GAAAAGTCAAAGATATGGGTATCAAATATT
46863430 GAAAAGTCAAAGATATGGGTATCAAATATT
1 GAAAAGTCAAAGATATGGGTATCAAATATT
46863460 GAAAAGTCAAAGATATGGGTATCAAATATT
1 GAAAAGTCAAAGATATGGGTATCAAATATT
46863490 GAAAAGTCAAAGATATGGGTATCAAATATT
1 GAAAAGTCAAAGATATGGGTATCAAATATT
*
46863520 GAAAAGTCAAAGATATGGGTATCGAGATATT
1 GAAAAGTCAAAGATATGGGTATC-AAATATT
46863551 G
1 G
46863552 GCATAATAAA
Statistics
Matches: 356, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
29 4 0.01
30 345 0.97
31 7 0.02
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.26
Consensus pattern (30 bp):
GAAAAGTCAAAGATATGGGTATCAAATATT
Found at i:46868159 original size:30 final size:30
Alignment explanation
Indices: 46868126--46868516 Score: 721
Period size: 30 Copynumber: 13.0 Consensus size: 30
46868116 CATATTTATG
* *
46868126 GAAAA-TCAAAGATATGAGTATCAAATAAT
1 GAAAAGTCAAAGATATGGGTATCAAATATT
*
46868155 GGAAAGTCAAAGATATGGGTATCAAATATT
1 GAAAAGTCAAAGATATGGGTATCAAATATT
46868185 GAAAAGTCAAAGATATGGGTATCAAATATT
1 GAAAAGTCAAAGATATGGGTATCAAATATT
46868215 GAAAAGTCAAAGATATGGGTATCAAATATT
1 GAAAAGTCAAAGATATGGGTATCAAATATT
46868245 GAAAAGTCAAAGATATGGGTATCAAATATT
1 GAAAAGTCAAAGATATGGGTATCAAATATT
46868275 GAAAAGTCAAAGATATGGGTATCAAATATT
1 GAAAAGTCAAAGATATGGGTATCAAATATT
46868305 GAAAAGTCAAAGATATGGGTATCAAATATT
1 GAAAAGTCAAAGATATGGGTATCAAATATT
46868335 GAAAAGTCAAAGATATGGGTATCAAATATT
1 GAAAAGTCAAAGATATGGGTATCAAATATT
46868365 GAAAAGTCAAAGATATGGGTATCAAATATT
1 GAAAAGTCAAAGATATGGGTATCAAATATT
46868395 GAAAAGTCAAAGATATGGGTATCAAATATT
1 GAAAAGTCAAAGATATGGGTATCAAATATT
46868425 GAAAAGTCAAAGATATGGGTATCAAATATT
1 GAAAAGTCAAAGATATGGGTATCAAATATT
46868455 GAAAAGTCAAAGATATGGGTATCAAATATT
1 GAAAAGTCAAAGATATGGGTATCAAATATT
* *
46868485 GGAAAGTCAAAGATATGGGTATCGAGATATT
1 GAAAAGTCAAAGATATGGGTATC-AAATATT
46868516 G
1 G
46868517 GCATAATAAA
Statistics
Matches: 354, Mismatches: 6, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
29 4 0.01
30 343 0.97
31 7 0.02
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.26
Consensus pattern (30 bp):
GAAAAGTCAAAGATATGGGTATCAAATATT
Found at i:46875451 original size:20 final size:21
Alignment explanation
Indices: 46875412--46875451 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
46875402 GATGATATTT
*
46875412 TCTTTATTTTATTATTTTTCA
1 TCTTTATTTTATTATCTTTCA
46875433 TCTTTATTTT-TTATCTTTC
1 TCTTTATTTTATTATCTTTC
46875452 CAATTTTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.72
Consensus pattern (21 bp):
TCTTTATTTTATTATCTTTCA
Found at i:46876080 original size:29 final size:28
Alignment explanation
Indices: 46876027--46876085 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
46876017 CCTTCATAAA
* *
46876027 AATAAATAAATAAATCAATTAAGCTTCT
1 AATAAATAAATAAATCAACTAAGCTACT
*
46876055 AATAAA-AAATCACAATCAACTGAGCTACT
1 AATAAATAAAT-A-AATCAACTAAGCTACT
46876084 AA
1 AA
46876086 AATGTAGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 4 0.15
28 7 0.27
29 15 0.58
ACGTcount: A:0.54, C:0.15, G:0.05, T:0.25
Consensus pattern (28 bp):
AATAAATAAATAAATCAACTAAGCTACT
Found at i:46876815 original size:53 final size:52
Alignment explanation
Indices: 46876711--46876966 Score: 123
Period size: 52 Copynumber: 5.0 Consensus size: 52
46876701 TTTTAAAAAA
* **
46876711 AAAGAGAAAGTTTAGATTTTAAAAATTAAAAATTTGTTTTTTTTAGTTATTTT
1 AAAGAGAAAGTTTAAATTTTAAAAA-TAAAAATTTGTTTTTTTTAACTATTTT
**
46876764 AAAG-GAAAGTTTAAATTTTTAAAAA-AAAGTTTTGATTTTTTTTCAACTATTTT
1 AAAGAGAAAGTTTAAA-TTTTAAAAATAAAAATTTG-TTTTTTTT-AACTATTTT
* * * * *
46876817 AAA-ATAAAAGCTTT-GATCTTTAAGAA-AAATA-GTGTTTTTTTT---TA----
1 AAAGA-GAAAG-TTTAAAT-TTTAAAAATAAAAATTTGTTTTTTTTAACTATTTT
* * *
46876861 AATGAGAAAGTTTAGATTTTAAAAAATAAAAATATGTTTGTTTTTTTT-AGTCATTTT
1 AAAGAGAAAGTTTAAATTTT-AAAAAT-AAAA-A--TTTGTTTTTTTTAACT-ATTTT
* **
46876918 TAAG-GAAAGTTTAAATTTT-AAAA-AAAAATTAATTTTTTTTCAACTATTT
1 AAAGAGAAAGTTTAAATTTTAAAAATAAAAATTTGTTTTTTTT-AACTATTT
46876967 CAAAATAAAA
Statistics
Matches: 156, Mismatches: 22, Indels: 53
0.68 0.10 0.23
Matches are distributed among these distances:
43 6 0.04
44 13 0.08
45 1 0.01
46 3 0.02
47 1 0.01
48 2 0.01
49 10 0.06
50 14 0.09
51 10 0.06
52 31 0.20
53 27 0.17
54 19 0.12
55 3 0.02
56 14 0.09
57 2 0.01
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.46
Consensus pattern (52 bp):
AAAGAGAAAGTTTAAATTTTAAAAATAAAAATTTGTTTTTTTTAACTATTTT
Found at i:46877020 original size:150 final size:144
Alignment explanation
Indices: 46876710--46877141 Score: 550
Period size: 151 Copynumber: 2.9 Consensus size: 144
46876700 TTTTTAAAAA
*
46876710 AAAAGAGAAAGTTTAGATTTTAAAAATTAAAAATTTGTTTTTTTTAGTTATTTTAAAGGAAAGTT
1 AAAAGAGAAAGTTTAGATTTTAAAAA-TAAAAATTTGTTTTTTTTAGTCATTTTAAAGGAAAGTT
* *
46876775 TAAATTTTTAAAAAAAAGTTTTGATTTTTTTTCAACTATTTTAAAATAAAAGCTTTGATCTTTAA
65 TAAA-TTTTAAAAAAAA--ATT-ATTTTTTTTCAACTATTTCAAAATAAAAG-TTTGATCTTTAA
46876840 GAAAAATAGTGTTTTTTTTT
125 GAAAAATAGTGTTTTTTTTT
* *
46876860 AAATGAGAAAGTTTAGATTTTAAAAAATAAAAATATGTTTGTTTTTTTTAGTCATTTTTAAGGAA
1 AAAAGAGAAAGTTTAGATTTT-AAAAAT-AAAA-A--TTTGTTTTTTTTAGTCATTTTAAAGGAA
46876925 AGTTTAAATTTTAAAAAAAAATTAATTTTTTTTCAACTATTTCAAAATAAAAGTTTTGATCTTTA
61 AGTTTAAATTTTAAAAAAAAATT-ATTTTTTTTCAACTATTTCAAAATAAAAG-TTTGATCTTTA
46876990 AGAAAAATAGTG-TTTTTTTT
124 AGAAAAATAGTGTTTTTTTTT
* *
46877010 AAAAGAGAAAGTTTAGATTTTTAAAATAAAAATTTG--TTTTTTAGTCATTTTAAAGGAAAATTT
1 AAAAGAGAAAGTTTAGATTTTAAAAATAAAAATTTGTTTTTTTTAGTCATTTTAAAGG-AAAGTT
* * * * *
46877073 TGAATTTTTTAAAAACAAATTTTTGATCTTTTTCAACTATTTCTAAATAAAA-TTTGATTTTTAA
65 T-AA-ATTTTAAAAAAAAATTATT--T-TTTTTCAACTATTTCAAAATAAAAGTTTGATCTTTAA
46877137 -AAAAA
125 GAAAAA
46877142 GGTAATAATT
Statistics
Matches: 255, Mismatches: 16, Indels: 27
0.86 0.05 0.09
Matches are distributed among these distances:
143 19 0.07
144 6 0.02
145 13 0.05
146 25 0.10
147 2 0.01
148 27 0.11
149 5 0.02
150 49 0.19
151 62 0.24
152 1 0.00
153 12 0.05
154 34 0.13
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.45
Consensus pattern (144 bp):
AAAAGAGAAAGTTTAGATTTTAAAAATAAAAATTTGTTTTTTTTAGTCATTTTAAAGGAAAGTTT
AAATTTTAAAAAAAAATTATTTTTTTTCAACTATTTCAAAATAAAAGTTTGATCTTTAAGAAAAA
TAGTGTTTTTTTTT
Found at i:46877729 original size:10 final size:11
Alignment explanation
Indices: 46877713--46877743 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
46877703 TTGTATAATT
46877713 TTTATTTATTC
1 TTTATTTATTC
46877724 -TTATTTATTC
1 TTTATTTATTC
46877734 TTTATTTATT
1 TTTATTTATT
46877744 TTCATGTCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTATTTATTC
Found at i:46879186 original size:17 final size:17
Alignment explanation
Indices: 46879146--46879199 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 17
46879136 AAATTTAGAA
*
46879146 ATATTATAAAAATAATAT
1 ATATTAT-AAAATATTAT
*
46879164 AAATATATAAATATATTAT
1 ATAT-TATAAA-ATATTAT
46879183 ATATTATAAAATATTAT
1 ATATTATAAAATATTAT
46879200 TAATTTATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 7 0.23
18 12 0.39
19 12 0.39
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATATTATAAAATATTAT
Found at i:46879194 original size:19 final size:19
Alignment explanation
Indices: 46879146--46879201 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
46879136 AAATTTAGAA
*
46879146 ATATTATAAAA-ATAATAT
1 ATATTATAAAATATATTAT
*
46879164 A-AATATATAAATATATTAT
1 ATATTATA-AAATATATTAT
46879183 ATATTATAAAATATTATTA
1 ATATTATAAAATA-TATTA
46879202 ATTTATTAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 5 0.16
18 4 0.13
19 12 0.39
20 10 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
ATATTATAAAATATATTAT
Found at i:46879196 original size:10 final size:10
Alignment explanation
Indices: 46879112--46879199 Score: 57
Period size: 10 Copynumber: 9.1 Consensus size: 10
46879102 TATTTAATTC
46879112 TAAAA-ATTA
1 TAAAATATTA
46879121 TTAAAAT-TGTA
1 -TAAAATAT-TA
*
46879132 TAAAAAATT-
1 TAAAATATTA
46879141 TAGAAATATTA
1 TA-AAATATTA
*
46879152 TAAAA-ATAA
1 TAAAATATTA
46879161 TATAAATA-TA
1 TA-AAATATTA
46879171 TAAATATATTA
1 TAAA-ATATTA
46879182 T---ATATTA
1 TAAAATATTA
46879189 TAAAATATTA
1 TAAAATATTA
46879199 T
1 T
46879200 TAATTTATTA
Statistics
Matches: 62, Mismatches: 4, Indels: 24
0.69 0.04 0.27
Matches are distributed among these distances:
7 7 0.11
9 9 0.15
10 37 0.60
11 9 0.15
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (10 bp):
TAAAATATTA
Found at i:46880401 original size:38 final size:38
Alignment explanation
Indices: 46880345--46880421 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
46880335 GGAATCTTAG
*
46880345 AGCTTCTGAAGTATCATGCCCGTGTATTATATATTGAT
1 AGCTTCTGAAGTACCATGCCCGTGTATTATATATTGAT
*
46880383 AGCTTCTGAAGTACCATGCCCGTGTATTATGTATTGAT
1 AGCTTCTGAAGTACCATGCCCGTGTATTATATATTGAT
46880421 A
1 A
46880422 TAGATGTACA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (38 bp):
AGCTTCTGAAGTACCATGCCCGTGTATTATATATTGAT
Found at i:46880444 original size:36 final size:38
Alignment explanation
Indices: 46880357--46880446 Score: 107
Period size: 38 Copynumber: 2.4 Consensus size: 38
46880347 CTTCTGAAGT
*
46880357 ATCATGCCCGTGTATTATATATTGATAGCTTCTGAAGTAC
1 ATCATGCCCGTGTATTATATATTGATA-C-TCAGAAGTAC
* *
46880397 --CATGCCCGTGTATTATGTATTGATA-T-AGATGTAC
1 ATCATGCCCGTGTATTATATATTGATACTCAGAAGTAC
46880431 ATCATGCCCGTGTATT
1 ATCATGCCCGTGTATT
46880447 CTAGTTATAG
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
34 6 0.13
35 1 0.02
36 14 0.31
38 24 0.53
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.38
Consensus pattern (38 bp):
ATCATGCCCGTGTATTATATATTGATACTCAGAAGTAC
Found at i:46883804 original size:20 final size:20
Alignment explanation
Indices: 46883754--46883804 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
46883744 TATAATTTTT
*
46883754 TAAAAGAATTAAAATTTATTA
1 TAAAA-AATTAAAATTTAGTA
**
46883775 TAAATTATTAAAATGTT-GTA
1 TAAAAAATTAAAAT-TTAGTA
46883795 TAAAAAATTA
1 TAAAAAATTA
46883805 GACAAAAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (20 bp):
TAAAAAATTAAAATTTAGTA
Found at i:46889160 original size:24 final size:24
Alignment explanation
Indices: 46889110--46889163 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
46889100 ATCTTCATGT
* *
46889110 TCATCATCTTCATCATCAGAAATA
1 TCATCATCTTCATCACCAGAAACA
*
46889134 TCATCATCTTCAATCACCA-AAGCA
1 TCATCATCTTC-ATCACCAGAAACA
46889158 TCATCA
1 TCATCA
46889164 ATCTCCACAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 20 0.77
25 6 0.23
ACGTcount: A:0.37, C:0.30, G:0.04, T:0.30
Consensus pattern (24 bp):
TCATCATCTTCATCACCAGAAACA
Found at i:46894817 original size:29 final size:29
Alignment explanation
Indices: 46894784--46894843 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
46894774 AGGAGAAAGA
46894784 GTACACAATCTCCTATTACAAGTTGCCTC
1 GTACACAATCTCCTATTACAAGTTGCCTC
46894813 GTACACAATCTCCTATTACAAGTTGCCTC
1 GTACACAATCTCCTATTACAAGTTGCCTC
46894842 GT
1 GT
46894844 TAAAAACTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.32
Consensus pattern (29 bp):
GTACACAATCTCCTATTACAAGTTGCCTC
Found at i:46901925 original size:20 final size:20
Alignment explanation
Indices: 46901902--46901942 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
46901892 TTTTCAGAAT
46901902 TTAACCAAATATTTCAAAAC
1 TTAACCAAATATTTCAAAAC
46901922 TTAACCAAATATTTCAAAAC
1 TTAACCAAATATTTCAAAAC
46901942 T
1 T
46901943 GTCAAATCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.32
Consensus pattern (20 bp):
TTAACCAAATATTTCAAAAC
Found at i:46902973 original size:43 final size:42
Alignment explanation
Indices: 46902925--46903078 Score: 123
Period size: 42 Copynumber: 3.6 Consensus size: 42
46902915 CCCTAGACGT
* * *
46902925 GGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAGACAG
1 GGTCTTACACGTAATTCAA-ATCGATGCCTATGTCCCAGACAC
* * * *
46902968 GGTCTTACACG-AAATCAAATACAATG-CTGATGTCCTAGACAT
1 GGTCTTACACGTAATTCAAAT-CGATGCCT-ATGTCCCAGACAC
* ** *
46903010 GGTTTTACACGTAAATCTCAAATCGAAACCTGTGTCCCAGACAC
1 GGTCTTACACGT-AAT-TCAAATCGATGCCTATGTCCCAGACAC
* *
46903054 GGTCTTACACGATATTTCAGATCGA
1 GGTCTTACACG-TAATTCAAATCGA
46903079 AGTCAACGTT
Statistics
Matches: 87, Mismatches: 17, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
41 4 0.05
42 30 0.34
43 18 0.21
44 26 0.30
45 9 0.10
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.28
Consensus pattern (42 bp):
GGTCTTACACGTAATTCAAATCGATGCCTATGTCCCAGACAC
Found at i:46903052 original size:44 final size:42
Alignment explanation
Indices: 46902956--46903065 Score: 116
Period size: 44 Copynumber: 2.6 Consensus size: 42
46902946 TCGATGCCTC
* **
46902956 TGTCCCAGACAGGGTCTTACACGAAATCAAATACAATGCTGA
1 TGTCCCAGACACGGTCTTACACGAAATCAAATACAAACCTGA
* * *
46902998 TGTCCTAGACATGGTTTTACACGTAAATCTCAAAT-CGAAACCTG-
1 TGTCCCAGACACGGTCTTACACG-AAA--TCAAATAC-AAACCTGA
46903042 TGTCCCAGACACGGTCTTACACGA
1 TGTCCCAGACACGGTCTTACACGA
46903066 TATTTCAGAT
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
42 20 0.36
43 4 0.07
44 21 0.38
45 11 0.20
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
TGTCCCAGACACGGTCTTACACGAAATCAAATACAAACCTGA
Found at i:46903058 original size:86 final size:85
Alignment explanation
Indices: 46902902--46903065 Score: 213
Period size: 86 Copynumber: 1.9 Consensus size: 85
46902892 CATAAACAAG
* * **
46902902 TACAATGCCGACGCCCTAGACGTGGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAGACA
1 TACAATGCCGACGCCCTAGACATGGTCTTACACGTAATTCAATATCGAAACCTCTGTCCCAGACA
*
46902967 GGGTCTTACACGAAATCAAA
66 CGGTCTTACACGAAATCAAA
* * * * *
46902987 TACAATGCTGATGTCCTAGACATGGTTTTACACGTAAATCTCAA-ATCGAAACCTGTGTCCCAGA
1 TACAATGCCGACGCCCTAGACATGGTCTTACACGT-AAT-TCAATATCGAAACCTCTGTCCCAGA
46903051 CACGGTCTTACACGA
64 CACGGTCTTACACGA
46903066 TATTTCAGAT
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
85 29 0.43
86 34 0.51
87 4 0.06
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (85 bp):
TACAATGCCGACGCCCTAGACATGGTCTTACACGTAATTCAATATCGAAACCTCTGTCCCAGACA
CGGTCTTACACGAAATCAAA
Found at i:46907473 original size:29 final size:29
Alignment explanation
Indices: 46907412--46907473 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
46907402 CTAGCCTATG
*
46907412 TGCCCTAAAAATGGCCACACAAGCCCGTG
1 TGCCCTAAAAATGGCCACACAAGCCCGTA
* * * *
46907441 TGCCTTAAAAATGGCCATACACGCCTGTA
1 TGCCCTAAAAATGGCCACACAAGCCCGTA
46907470 TGCC
1 TGCC
46907474 AGGCCGTGTG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.29, C:0.32, G:0.19, T:0.19
Consensus pattern (29 bp):
TGCCCTAAAAATGGCCACACAAGCCCGTA
Found at i:46908580 original size:40 final size:40
Alignment explanation
Indices: 46908486--46908586 Score: 123
Period size: 41 Copynumber: 2.5 Consensus size: 40
46908476 TATAATTTCG
* * * *
46908486 CACACTAAGTGCCTTACATAGCCGAAGCTATCTCGGTCTCA
1 CACACTAAGTGCCATATATAACCGAAGCTATCTCGATCT-A
*
46908527 CACACTAAGTGCCATATATAACCGAAGCTATCTTGAATCT-
1 CACACTAAGTGCCATATATAACCGAAGCTATCTCG-ATCTA
*
46908567 CACACTAAATGCCATATATA
1 CACACTAAGTGCCATATATA
46908587 TATAAATATC
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
40 19 0.36
41 31 0.58
42 3 0.06
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.26
Consensus pattern (40 bp):
CACACTAAGTGCCATATATAACCGAAGCTATCTCGATCTA
Found at i:46917201 original size:21 final size:21
Alignment explanation
Indices: 46917175--46917215 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
46917165 CAAGGTGGAG
*
46917175 ATTATTGGCAATTATCCATAA
1 ATTATTGGCAATCATCCATAA
46917196 ATTATTGGCAATCATCCATA
1 ATTATTGGCAATCATCCATA
46917216 CTTTAGAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (21 bp):
ATTATTGGCAATCATCCATAA
Found at i:46934779 original size:92 final size:88
Alignment explanation
Indices: 46934624--46935609 Score: 1058
Period size: 92 Copynumber: 11.5 Consensus size: 88
46934614 GACCTTCAGT
* * *
46934624 GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACTGGGAGCAGATCGAAGACATAACAGA
1 GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGGGAACAGATCGAAGACACAACAGA
46934689 T-TGGACCTTCATGTGTTTACATC
66 TCT-GACCTTCATGTGTTTACATC
46934712 GAAGCAGATCCAAGATGACATATTTGGCATCTCTGTATTAGACAGGGAACAGATCGAAGACACAA
1 GAAGCAGATCCAAGATG----ATTTGGCATCTCTGTATTAGACAGGGAACAGATCGAAGACACAA
*
46934777 CAGATCTGA-C--C-----TTT--ATT
62 CAGATCTGACCTTCATGTGTTTACATC
* * * *
46934794 GAAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGACTGGGAGCAGATCGAAGACATAACAGA
1 GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGGGAACAGATCGAAGACACAACAGA
46934859 T-TGGACCTTCATGTGTTTACATC
66 TCT-GACCTTCATGTGTTTACATC
46934882 GAAGCAGATCCAAGATGACATATTTGGCATCTCTGTATTAGACAGGGAACAGATCGAAGACACAA
1 GAAGCAGATCCAAGATG----ATTTGGCATCTCTGTATTAGACAGGGAACAGATCGAAGACACAA
*
46934947 CAGATCTGA-C--C-----TTT--ATT
62 CAGATCTGACCTTCATGTGTTTACATC
* * * *
46934964 GAAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGACTGGGAGCAGATCGAAGACATAACAGA
1 GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGGGAACAGATCGAAGACACAACAGA
46935029 T-TGGACCTTCATGTGTTTACATC
66 TCT-GACCTTCATGTGTTTACATC
46935052 GAAGCAGATCCAAGATGACATATTTGGCATCTCTGTATTAGACAGGGAACAGATCGAAGACACAA
1 GAAGCAGATCCAAGATG----ATTTGGCATCTCTGTATTAGACAGGGAACAGATCGAAGACACAA
*
46935117 CAGATCTGA-C--C-----TTT--ATT
62 CAGATCTGACCTTCATGTGTTTACATC
* * * *
46935134 GAAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGACTGGGAGCAGATCGAAGACATAACAGA
1 GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGGGAACAGATCGAAGACACAACAGA
46935199 T-TGGACCTTCATGTGTTTACATC
66 TCT-GACCTTCATGTGTTTACATC
46935222 GAAGCAGATCCAAGATGACATATTTGGCATCTCTGTATTAGACAGGGAACAGATCGAAGACACAA
1 GAAGCAGATCCAAGATG----ATTTGGCATCTCTGTATTAGACAGGGAACAGATCGAAGACACAA
*
46935287 CAGATCTGA-C--C-----TTT--ATT
62 CAGATCTGACCTTCATGTGTTTACATC
* * * *
46935304 GAAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGACTGGGAGCAGATCGAAGACATAACAGA
1 GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGGGAACAGATCGAAGACACAACAGA
46935369 T-TGGACCTTCATGTGTTTACATC
66 TCT-GACCTTCATGTGTTTACATC
46935392 GAAGCAGATCCAAGATGACATATTTGGCATCTCTGTATTAGACAGGGAACAGATCGAAGACACAA
1 GAAGCAGATCCAAGATG----ATTTGGCATCTCTGTATTAGACAGGGAACAGATCGAAGACACAA
*
46935457 CAGATCTGA-C--C-----TTT--ATT
62 CAGATCTGACCTTCATGTGTTTACATC
* * * *
46935474 GAAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGACTGGGAGCAGATCGAAGACATAACAGA
1 GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGGGAACAGATCGAAGACACAACAGA
46935539 T-TGGACCTTCATGTGTTTACATC
66 TCT-GACCTTCATGTGTTTACATC
46935562 GAAGCAGATCCAAGATGACATATTTGGCATCTCTGTATTAGACAGGGA
1 GAAGCAGATCCAAGATG----ATTTGGCATCTCTGTATTAGACAGGGA
46935610 GCAAATCGGA
Statistics
Matches: 763, Mismatches: 51, Indels: 164
0.78 0.05 0.17
Matches are distributed among these distances:
77 5 0.01
78 240 0.31
79 5 0.01
81 5 0.01
82 90 0.12
84 15 0.02
86 15 0.02
88 107 0.14
89 5 0.01
91 5 0.01
92 266 0.35
93 5 0.01
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (88 bp):
GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGGGAACAGATCGAAGACACAACAGA
TCTGACCTTCATGTGTTTACATC
Found at i:46934805 original size:170 final size:170
Alignment explanation
Indices: 46934563--46935609 Score: 1997
Period size: 170 Copynumber: 6.2 Consensus size: 170
46934553 GAAGAAACAG
** * * * * * *
46934563 ATTTGGCATCTCCATATTCGAC-GGAGAGCAGATCAAAGACATAACAGATCTGACCTTCAGTGAA
1 ATTTGGCATCTCTGTATTAGACAGG-GAACAGATCGAAGACACAACAGATCTGACCTTTATTGAA
*
46934627 GCAGATCCAAGATGATTTGGCATCTCTGTATTAGACTGGGAGCAGATCGAAGACATAACAGATTG
65 GTAGATCCAAGATGATTTGGCATCTCTGTATTAGACTGGGAGCAGATCGAAGACATAACAGATTG
46934692 GACCTTCATGTGTTTACATCGAAGCAGATCCAAGATGACAT
130 GACCTTCATGTGTTTACATCGAAGCAGATCCAAGATGACAT
46934733 ATTTGGCATCTCTGTATTAGACAGGGAACAGATCGAAGACACAACAGATCTGACCTTTATTGAAG
1 ATTTGGCATCTCTGTATTAGACAGGGAACAGATCGAAGACACAACAGATCTGACCTTTATTGAAG
46934798 TAGATCCAAGATGATTTGGCATCTCTGTATTAGACTGGGAGCAGATCGAAGACATAACAGATTGG
66 TAGATCCAAGATGATTTGGCATCTCTGTATTAGACTGGGAGCAGATCGAAGACATAACAGATTGG
46934863 ACCTTCATGTGTTTACATCGAAGCAGATCCAAGATGACAT
131 ACCTTCATGTGTTTACATCGAAGCAGATCCAAGATGACAT
46934903 ATTTGGCATCTCTGTATTAGACAGGGAACAGATCGAAGACACAACAGATCTGACCTTTATTGAAG
1 ATTTGGCATCTCTGTATTAGACAGGGAACAGATCGAAGACACAACAGATCTGACCTTTATTGAAG
46934968 TAGATCCAAGATGATTTGGCATCTCTGTATTAGACTGGGAGCAGATCGAAGACATAACAGATTGG
66 TAGATCCAAGATGATTTGGCATCTCTGTATTAGACTGGGAGCAGATCGAAGACATAACAGATTGG
46935033 ACCTTCATGTGTTTACATCGAAGCAGATCCAAGATGACAT
131 ACCTTCATGTGTTTACATCGAAGCAGATCCAAGATGACAT
46935073 ATTTGGCATCTCTGTATTAGACAGGGAACAGATCGAAGACACAACAGATCTGACCTTTATTGAAG
1 ATTTGGCATCTCTGTATTAGACAGGGAACAGATCGAAGACACAACAGATCTGACCTTTATTGAAG
46935138 TAGATCCAAGATGATTTGGCATCTCTGTATTAGACTGGGAGCAGATCGAAGACATAACAGATTGG
66 TAGATCCAAGATGATTTGGCATCTCTGTATTAGACTGGGAGCAGATCGAAGACATAACAGATTGG
46935203 ACCTTCATGTGTTTACATCGAAGCAGATCCAAGATGACAT
131 ACCTTCATGTGTTTACATCGAAGCAGATCCAAGATGACAT
46935243 ATTTGGCATCTCTGTATTAGACAGGGAACAGATCGAAGACACAACAGATCTGACCTTTATTGAAG
1 ATTTGGCATCTCTGTATTAGACAGGGAACAGATCGAAGACACAACAGATCTGACCTTTATTGAAG
46935308 TAGATCCAAGATGATTTGGCATCTCTGTATTAGACTGGGAGCAGATCGAAGACATAACAGATTGG
66 TAGATCCAAGATGATTTGGCATCTCTGTATTAGACTGGGAGCAGATCGAAGACATAACAGATTGG
46935373 ACCTTCATGTGTTTACATCGAAGCAGATCCAAGATGACAT
131 ACCTTCATGTGTTTACATCGAAGCAGATCCAAGATGACAT
46935413 ATTTGGCATCTCTGTATTAGACAGGGAACAGATCGAAGACACAACAGATCTGACCTTTATTGAAG
1 ATTTGGCATCTCTGTATTAGACAGGGAACAGATCGAAGACACAACAGATCTGACCTTTATTGAAG
46935478 TAGATCCAAGATGATTTGGCATCTCTGTATTAGACTGGGAGCAGATCGAAGACATAACAGATTGG
66 TAGATCCAAGATGATTTGGCATCTCTGTATTAGACTGGGAGCAGATCGAAGACATAACAGATTGG
46935543 ACCTTCATGTGTTTACATCGAAGCAGATCCAAGATGACAT
131 ACCTTCATGTGTTTACATCGAAGCAGATCCAAGATGACAT
46935583 ATTTGGCATCTCTGTATTAGACAGGGA
1 ATTTGGCATCTCTGTATTAGACAGGGA
46935610 GCAAATCGGA
Statistics
Matches: 867, Mismatches: 9, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
170 865 1.00
171 2 0.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.26
Consensus pattern (170 bp):
ATTTGGCATCTCTGTATTAGACAGGGAACAGATCGAAGACACAACAGATCTGACCTTTATTGAAG
TAGATCCAAGATGATTTGGCATCTCTGTATTAGACTGGGAGCAGATCGAAGACATAACAGATTGG
ACCTTCATGTGTTTACATCGAAGCAGATCCAAGATGACAT
Found at i:46935655 original size:45 final size:45
Alignment explanation
Indices: 46935491--46935713 Score: 202
Period size: 45 Copynumber: 4.9 Consensus size: 45
46935481 ATCCAAGATG
* * *
46935491 ATTTGGCATCTCTGTATTAGACTGGGAGCAGATCGAAGACATAACAG
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAG--ATAACAT
* * * * * * *
46935538 A-TTGG-ACCTTCATGTGTTTACATC--GAAGCAGATCCAAGATGACAT
1 ATTTGGCATC-TC-TGT-ATTAGA-CGGGGAGCAAATCGAAGATAACAT
* * *
46935583 ATTTGGCATCTCTGTATTAGACAGGGAGCAAATCGGAGATAACAG
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAT
* *
46935628 ATTTGGCATCTCTGTATTACACGGGGAGCAGATCGAAGATAACAT
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAT
* * *
46935673 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATA
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATA
46935714 GTAGATATCG
Statistics
Matches: 144, Mismatches: 24, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 4 0.03
45 104 0.72
46 12 0.08
47 18 0.12
48 4 0.03
49 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.26
Consensus pattern (45 bp):
ATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAT
Found at i:46935713 original size:90 final size:90
Alignment explanation
Indices: 46935491--46935713 Score: 256
Period size: 90 Copynumber: 2.5 Consensus size: 90
46935481 ATCCAAGATG
* * *
46935491 ATTTGGCATCTCTGTATTAGACTGGGAGCAGATCGAAGACATAACAGATTGGACCTTCATGTGTT
1 ATTTGGCATCTCTGTATTAGACAGGGAGCAGATC-AA-AGATAACAGATTGGACCTTCATGTGAT
*
46935556 TACATCGAAGCAGATCCAAGATGACAT
64 TACATCGAAGCAGATCCAAGATAACAT
* ** *
46935583 ATTTGGCATCTCTGTATTAGACAGGGAGCAAATCGGAGATAACAGATTTGG-CATCTC-TGT-AT
1 ATTTGGCATCTCTGTATTAGACAGGGAGCAGATCAAAGATAACAGA-TTGGACCT-TCATGTGAT
* *
46935645 TACA-CGGGGAGCAGATCGAAGATAACAT
64 TACATC--GAAGCAGATCCAAGATAACAT
* *
46935673 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATA
1 ATTTGGCATCTCTGTATTAGACAGGGAGCAGATCAAAGATA
46935714 GTAGATATCG
Statistics
Matches: 112, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
88 1 0.01
89 5 0.04
90 68 0.61
91 6 0.05
92 32 0.29
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.26
Consensus pattern (90 bp):
ATTTGGCATCTCTGTATTAGACAGGGAGCAGATCAAAGATAACAGATTGGACCTTCATGTGATTA
CATCGAAGCAGATCCAAGATAACAT
Found at i:46948455 original size:28 final size:28
Alignment explanation
Indices: 46948415--46948491 Score: 127
Period size: 28 Copynumber: 2.8 Consensus size: 28
46948405 TTAATGCTCA
*
46948415 ATATTTCGCACACTAAGTGCCATACTTG
1 ATATCTCGCACACTAAGTGCCATACTTG
*
46948443 ATATCTCGCACACCAAGTGCCATACTTG
1 ATATCTCGCACACTAAGTGCCATACTTG
*
46948471 ATATCTTGCACACTAAGTGCC
1 ATATCTCGCACACTAAGTGCC
46948492 GTACATAGCT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (28 bp):
ATATCTCGCACACTAAGTGCCATACTTG
Found at i:46948575 original size:41 final size:40
Alignment explanation
Indices: 46948478--46948613 Score: 186
Period size: 40 Copynumber: 3.4 Consensus size: 40
46948468 TTGATATCTT
* *
46948478 GCACACTAAGTGCCGTACATAGCTGAAGCTATCTCAAATT-
1 GCACACTAAGTGCCATATATAGCTGAAGCTATCTC-AATTC
* *
46948518 GCACACTAAGTGCCATATATAGCCGAAGCTATCTCATTCTC
1 GCACACTAAGTGCCATATATAGCTGAAGCTATCTCAAT-TC
*
46948559 GCACACTAAGTGCCATATATAGCTGAAGCTATGTCGAA-TC
1 GCACACTAAGTGCCATATATAGCTGAAGCTATCTC-AATTC
46948599 GCACACTAAGTGCCA
1 GCACACTAAGTGCCA
46948614 CAAATAATCG
Statistics
Matches: 86, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
39 2 0.02
40 50 0.58
41 33 0.38
42 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (40 bp):
GCACACTAAGTGCCATATATAGCTGAAGCTATCTCAATTC
Found at i:46954156 original size:35 final size:37
Alignment explanation
Indices: 46954085--46954182 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
46954075 ATAATCTTCA
46954085 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
46954123 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
46954158 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
46954183 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:46954182 original size:17 final size:19
Alignment explanation
Indices: 46954085--46954175 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
46954075 ATAATCTTCA
46954085 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
46954104 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
46954123 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
46954140 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
46954158 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
46954176 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:46954201 original size:22 final size:22
Alignment explanation
Indices: 46954085--46954198 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 22
46954075 ATAATCTTCA
46954085 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
46954104 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
46954123 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
46954140 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
46954158 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
46954180 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
46954199 GATTTAATTT
Statistics
Matches: 86, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 34 0.40
22 8 0.09
23 12 0.14
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:46954488 original size:17 final size:18
Alignment explanation
Indices: 46954466--46954499 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
46954456 TTCCCTGATT
*
46954466 TTTTTTATAT-ATTTTAA
1 TTTTTTAAATAATTTTAA
46954483 TTTTTTAAATAATTTTA
1 TTTTTTAAATAATTTTA
46954500 GTATCATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTTTAAATAATTTTAA
Found at i:46963424 original size:213 final size:209
Alignment explanation
Indices: 46962858--46963501 Score: 611
Period size: 220 Copynumber: 3.0 Consensus size: 209
46962848 AGATTTGGCT
** ** * * * **
46962858 TTCACGTGTTTACGCTGAAGCAGATTTAAGATGATTTAACATATCTGTATTGTTAGAGAACAAAT
1 TTCACGTGTTTACGCTGAAGCAGATCCAAGATGATTTGGCATCTCTATACTGACAGAGAACAAAT
* * *
46962923 CGAAGAAACAGATTTGGCATCTCCATATTCGATGGAGAGTAGATCGAAGACATAACAGATCTAAA
66 CGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGAAGATCAAAGACATAACAGA--T---
* * * ** *
46962988 CTTCGGATGTCTTCACATCGAAGTAGATCCAAGATGATTTGGCATC-CTTGCGTT-GACAAGGAG
126 C-T--GA--CCTTCA-GT-GAAGCAGATCCAAGATGATTTGGCATCTC-TGTATTAGACAGGGAG
* * * * *
46963051 TAGATCAAAGATATAGCAGATTTGG-CT
183 CAGATCGAAGACATAACAGA-TTGGACC
* *
46963078 TTCACGTGTTTACGCTGAAGCAGATCCAAGATGGTTTGGCATCTCTATACTGTCAGAGAACAAAT
1 TTCACGTGTTTACGCTGAAGCAGATCCAAGATGATTTGGCATCTCTATACTGACAGAGAACAAAT
* *
46963143 TGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAAGACATAACAGATCTGAC
66 CGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGAAGATCAAAGACATAACAGATCTGAC
*
46963208 CTTCAGTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACTGGGAGCAGATCGAAGACA
131 CTTCAGTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACA
46963273 TAACAGATTGGACC
196 TAACAGATTGGACC
* * * * *
46963287 TTCATGTGTTTAC-ATCGAAGCAGATCCAAGATGACATATTTGGCATCTCTGTATTAGACAGGGA
1 TTCACGTGTTTACGCT-GAAGCAGATCCAAGATG----ATTTGGCATCTCTATACT-GACAGAGA
* * ** * * ***
46963351 GCAAATCGGAGATAACAGATTTGGCATCTCTGTATTAC-ACGG-G-GAAGATCGAAGACGTGGTA
60 ACAAATCGAAGA-AACAGATTTGGCATCTCCATATT-CGACGGAGAGAAGATCAAAGACATAACA
* * *
46963413 GATCTGACCTTCATTGAAGCAGATCCAAGATCATTTGGCATCTCTGTATTAGACAGGGAACAGAT
123 GATCTGACCTTCAGTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGGGAGCAGAT
*
46963478 CGAAGACACAACAGATCT-GACC
188 CGAAGACATAACAGAT-TGGACC
46963500 TT
1 TT
46963502 TATTGAAGTA
Statistics
Matches: 364, Mismatches: 48, Indels: 31
0.82 0.11 0.07
Matches are distributed among these distances:
208 35 0.10
209 55 0.15
210 5 0.01
212 2 0.01
213 110 0.30
214 18 0.05
215 26 0.07
216 1 0.00
218 1 0.00
220 111 0.30
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (209 bp):
TTCACGTGTTTACGCTGAAGCAGATCCAAGATGATTTGGCATCTCTATACTGACAGAGAACAAAT
CGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGAAGATCAAAGACATAACAGATCTGAC
CTTCAGTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACA
TAACAGATTGGACC
Found at i:46963507 original size:78 final size:77
Alignment explanation
Indices: 46963369--46963582 Score: 288
Period size: 78 Copynumber: 2.8 Consensus size: 77
46963359 GAGATAACAG
* * * ***
46963369 ATTTGGCATCTCTGTATTACACGGGGA-AGATCGAAGACGTGGTAGATCTGACCTTCATTGAAGC
1 ATTTGGCATCTCTGTATTAGACGGGAACAGATCGAAGACATAACAGATCTGACCTTCATTGAAGC
46963433 AGATCCAAGATC
66 AGATCCAAGATC
* *
46963445 ATTTGGCATCTCTGTATTAGACAGGGAACAGATCGAAGACACAACAGATCTGACCTTTATTGAAG
1 ATTTGGCATCTCTGTATTAGAC-GGGAACAGATCGAAGACATAACAGATCTGACCTTCATTGAAG
* *
46963510 TAGATCCAAGATG
65 CAGATCCAAGATC
*
46963523 ATTTGGCATCTCTGTATTAGACTGGGAGCAGATCGAAGACATAACAGAT-TGGACCTTCAT
1 ATTTGGCATCTCTGTATTAGAC-GGGAACAGATCGAAGACATAACAGATCT-GACCTTCAT
46963583 GTGTTTACAT
Statistics
Matches: 121, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
76 21 0.17
77 5 0.04
78 95 0.79
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (77 bp):
ATTTGGCATCTCTGTATTAGACGGGAACAGATCGAAGACATAACAGATCTGACCTTCATTGAAGC
AGATCCAAGATC
Found at i:46963517 original size:291 final size:292
Alignment explanation
Indices: 46963154--46963698 Score: 977
Period size: 291 Copynumber: 1.9 Consensus size: 292
46963144 GAAGAAACAG
* * *
46963154 ATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAAGACATAACAGATCTGACCTTCAGTGAAG
1 ATTTGGCATCTCCATATTAGACGGAGAACAGATCAAAGACACAACAGATCTGACCTTCAGTGAAG
46963219 CAGATCCAAGATGATTTGGCATCTCTGTATTAGACTGGGAGCAGATCGAAGACATAACAGATTGG
66 CAGATCCAAGATGATTTGGCATCTCTGTATTAGACTGGGAGCAGATCGAAGACATAACAGATTGG
46963284 ACCTTCATGTGTTTACATCGAAGCAGATCCAAGATGACATATTTGGCATCTCTGTATTAGACAGG
131 ACCTTCATGTGTTTACATCGAAGCAGATCCAAGATGACATATTTGGCATCTCTGTATTAGACAGG
46963349 GAGCAAATCGGAGATAACAGATTTGGCATCTCTGTATTACACGGGGA-AGATCGAAGACGTGGTA
196 GAGCAAATCGGAGATAACAGATTTGGCATCTCTGTATTACACGGGGACAGATCGAAGACGTGGTA
46963413 GATCTGACCTTCATTGAAGCAGATCCAAGATC
261 GATCTGACCTTCATTGAAGCAGATCCAAGATC
** * * *
46963445 ATTTGGCATCTCTGTATTAGACAGG-GAACAGATCGAAGACACAACAGATCTGACCTTTATTGAA
1 ATTTGGCATCTCCATATTAGAC-GGAGAACAGATCAAAGACACAACAGATCTGACCTTCAGTGAA
*
46963509 GTAGATCCAAGATGATTTGGCATCTCTGTATTAGACTGGGAGCAGATCGAAGACATAACAGATTG
65 GCAGATCCAAGATGATTTGGCATCTCTGTATTAGACTGGGAGCAGATCGAAGACATAACAGATTG
46963574 GACCTTCATGTGTTTACATCGAAGCAGATCCAAGATGACATATTTGGCATCTCTGTATTAGACAG
130 GACCTTCATGTGTTTACATCGAAGCAGATCCAAGATGACATATTTGGCATCTCTGTATTAGACAG
46963639 GGAGCAAATCGGAGATAACAGATTTGGCATCTCTGTATTACACGGGGAGCAGATCGAAGA
195 GGAGCAAATCGGAGATAACAGATTTGGCATCTCTGTATTACACGGGGA-CAGATCGAAGA
46963699 TAACATATTT
Statistics
Matches: 242, Mismatches: 9, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
291 230 0.95
292 2 0.01
293 10 0.04
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.26
Consensus pattern (292 bp):
ATTTGGCATCTCCATATTAGACGGAGAACAGATCAAAGACACAACAGATCTGACCTTCAGTGAAG
CAGATCCAAGATGATTTGGCATCTCTGTATTAGACTGGGAGCAGATCGAAGACATAACAGATTGG
ACCTTCATGTGTTTACATCGAAGCAGATCCAAGATGACATATTTGGCATCTCTGTATTAGACAGG
GAGCAAATCGGAGATAACAGATTTGGCATCTCTGTATTACACGGGGACAGATCGAAGACGTGGTA
GATCTGACCTTCATTGAAGCAGATCCAAGATC
Found at i:46963687 original size:45 final size:45
Alignment explanation
Indices: 46963523--46963745 Score: 202
Period size: 45 Copynumber: 4.9 Consensus size: 45
46963513 ATCCAAGATG
* * *
46963523 ATTTGGCATCTCTGTATTAGACTGGGAGCAGATCGAAGACATAACAG
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAG--ATAACAT
* * * * * * *
46963570 A-TTGG-ACCTTCATGTGTTTACATC--GAAGCAGATCCAAGATGACAT
1 ATTTGGCATC-TC-TGT-ATTAGA-CGGGGAGCAAATCGAAGATAACAT
* * *
46963615 ATTTGGCATCTCTGTATTAGACAGGGAGCAAATCGGAGATAACAG
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAT
* *
46963660 ATTTGGCATCTCTGTATTACACGGGGAGCAGATCGAAGATAACAT
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAT
* * *
46963705 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATA
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATA
46963746 GTAGATATCG
Statistics
Matches: 144, Mismatches: 24, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 4 0.03
45 104 0.72
46 12 0.08
47 18 0.12
48 4 0.03
49 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.26
Consensus pattern (45 bp):
ATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAT
Found at i:46963745 original size:90 final size:90
Alignment explanation
Indices: 46963523--46963745 Score: 256
Period size: 90 Copynumber: 2.5 Consensus size: 90
46963513 ATCCAAGATG
* * *
46963523 ATTTGGCATCTCTGTATTAGACTGGGAGCAGATCGAAGACATAACAGATTGGACCTTCATGTGTT
1 ATTTGGCATCTCTGTATTAGACAGGGAGCAGATC-AA-AGATAACAGATTGGACCTTCATGTGAT
*
46963588 TACATCGAAGCAGATCCAAGATGACAT
64 TACATCGAAGCAGATCCAAGATAACAT
* ** *
46963615 ATTTGGCATCTCTGTATTAGACAGGGAGCAAATCGGAGATAACAGATTTGG-CATCTC-TGT-AT
1 ATTTGGCATCTCTGTATTAGACAGGGAGCAGATCAAAGATAACAGA-TTGGACCT-TCATGTGAT
* *
46963677 TACA-CGGGGAGCAGATCGAAGATAACAT
64 TACATC--GAAGCAGATCCAAGATAACAT
* *
46963705 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATA
1 ATTTGGCATCTCTGTATTAGACAGGGAGCAGATCAAAGATA
46963746 GTAGATATCG
Statistics
Matches: 112, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
88 1 0.01
89 5 0.04
90 68 0.61
91 6 0.05
92 32 0.29
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.26
Consensus pattern (90 bp):
ATTTGGCATCTCTGTATTAGACAGGGAGCAGATCAAAGATAACAGATTGGACCTTCATGTGATTA
CATCGAAGCAGATCCAAGATAACAT
Found at i:46964172 original size:35 final size:37
Alignment explanation
Indices: 46964101--46964198 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
46964091 ATAATCTTCA
46964101 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
46964139 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
46964174 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
46964199 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:46964198 original size:17 final size:19
Alignment explanation
Indices: 46964101--46964191 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
46964091 ATAATCTTCA
46964101 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
46964120 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
46964139 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
46964156 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
46964174 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
46964192 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:46964217 original size:22 final size:22
Alignment explanation
Indices: 46964101--46964214 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 22
46964091 ATAATCTTCA
46964101 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
46964120 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
46964139 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
46964156 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
46964174 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
46964196 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
46964215 GATTTAATTT
Statistics
Matches: 86, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 34 0.40
22 8 0.09
23 12 0.14
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:46964504 original size:18 final size:19
Alignment explanation
Indices: 46964481--46964516 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
46964471 TTTCCCTGAT
*
46964481 TTTTTTTATAT-ATTTTAA
1 TTTTTTTAAATAATTTTAA
46964499 TTTTTTTAAATAATTTTA
1 TTTTTTTAAATAATTTTA
46964517 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTTTAAATAATTTTAA
Found at i:46968658 original size:29 final size:29
Alignment explanation
Indices: 46968616--46968672 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
46968606 CCATTTAACT
*
46968616 CTTTTTTCTTTTTGGTTACATGAACCAAA
1 CTTTTTTCCTTTTGGTTACATGAACCAAA
46968645 CTTTTTTCCTTTTGGTTACATGAACCAA
1 CTTTTTTCCTTTTGGTTACATGAACCAA
46968673 TTAATTAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.23, C:0.19, G:0.11, T:0.47
Consensus pattern (29 bp):
CTTTTTTCCTTTTGGTTACATGAACCAAA
Found at i:46969966 original size:42 final size:42
Alignment explanation
Indices: 46969903--46969988 Score: 102
Period size: 42 Copynumber: 2.0 Consensus size: 42
46969893 GTGTCCTCAC
* * * * *
46969903 CCGTGTAACTCTCTGAGTTGCC-CTACACGCCCGTATGGCAGG
1 CCGTGCAACTCTCTCAATTGCCAC-ACACGCACGTATGCCAGG
*
46969945 CCGTGCAACTCTCTCAATTGCCACACACGCACGTGTGCCAGG
1 CCGTGCAACTCTCTCAATTGCCACACACGCACGTATGCCAGG
46969987 CC
1 CC
46969989 ATGTGATAGG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
42 36 0.97
43 1 0.03
ACGTcount: A:0.19, C:0.37, G:0.23, T:0.21
Consensus pattern (42 bp):
CCGTGCAACTCTCTCAATTGCCACACACGCACGTATGCCAGG
Found at i:46976701 original size:21 final size:21
Alignment explanation
Indices: 46976676--46976727 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
46976666 CTCTCTTAAC
46976676 AAAAATTAAAAAATAATTTTA
1 AAAAATTAAAAAATAATTTTA
* *
46976697 AAAAATT-CAAAATAATTTTT
1 AAAAATTAAAAAATAATTTTA
*
46976717 AAAATTTAAAA
1 AAAAATTAAAA
46976728 TATTTATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAAATTAAAAAATAATTTTA
Found at i:46976708 original size:20 final size:20
Alignment explanation
Indices: 46976685--46976739 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
46976675 CAAAAATTAA
46976685 AAAATAATTTTAAAAAATTC
1 AAAATAATTTTAAAAAATTC
* *
46976705 AAAATAATTTT-TAAAATTT
1 AAAATAATTTTAAAAAATTC
46976724 AAAAT-ATTTATAAAAA
1 AAAATAATTT-TAAAAA
46976740 TCCCAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 4 0.13
19 12 0.40
20 14 0.47
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAATAATTTTAAAAAATTC
Found at i:46976737 original size:18 final size:19
Alignment explanation
Indices: 46976685--46976738 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
46976675 CAAAAATTAA
*
46976685 AAAATAATTTTAAAAAATTC
1 AAAATAA-TTTATAAAATTC
* *
46976705 AAAATAATTTTTAAAATTT
1 AAAATAATTTATAAAATTC
46976724 AAAAT-ATTTATAAAA
1 AAAATAATTTATAAAA
46976739 ATCCCAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 9 0.30
19 14 0.47
20 7 0.23
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATAATTTATAAAATTC
Found at i:46976794 original size:10 final size:9
Alignment explanation
Indices: 46976757--46976834 Score: 66
Period size: 9 Copynumber: 8.0 Consensus size: 9
46976747 ATTTATATTT
46976757 TTTAAAAAA
1 TTTAAAAAA
*
46976766 ATTATAAAAA
1 TTTA-AAAAA
46976776 TTTCAAAAAAA
1 TTT--AAAAAA
46976787 TTCTAAAAAA
1 TT-TAAAAAA
46976797 TATATAAAAAA
1 T-T-TAAAAAA
*
46976808 GTTAAAAAA
1 TTTAAAAAA
*
46976817 GTTAAAAAA
1 TTTAAAAAA
*
46976826 GTTAAAAAA
1 TTTAAAAAA
46976835 GTTCTAGAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
9 28 0.47
10 15 0.25
11 15 0.25
12 2 0.03
ACGTcount: A:0.67, C:0.03, G:0.04, T:0.27
Consensus pattern (9 bp):
TTTAAAAAA
Found at i:46976813 original size:20 final size:20
Alignment explanation
Indices: 46976759--46976834 Score: 68
Period size: 21 Copynumber: 3.8 Consensus size: 20
46976749 TTATATTTTT
* *
46976759 TAAAAAAATTATAAAAATTTCA
1 TAAAAAAGTTA-AAAAATAT-A
*
46976781 -AAAAAATTCTAAAAAATATA
1 TAAAAAAGT-TAAAAAATATA
*
46976801 TAAAAAAGTTAAAAAA-GT-
1 TAAAAAAGTTAAAAAATATA
46976819 TAAAAAAGTTAAAAAA
1 TAAAAAAGTTAAAAAA
46976835 GTTCTAGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
18 16 0.33
19 1 0.02
20 8 0.17
21 21 0.44
22 2 0.04
ACGTcount: A:0.68, C:0.03, G:0.04, T:0.25
Consensus pattern (20 bp):
TAAAAAAGTTAAAAAATATA
Found at i:46976823 original size:8 final size:9
Alignment explanation
Indices: 46976801--46976837 Score: 74
Period size: 9 Copynumber: 4.1 Consensus size: 9
46976791 AAAAAATATA
46976801 TAAAAAAGT
1 TAAAAAAGT
46976810 TAAAAAAGT
1 TAAAAAAGT
46976819 TAAAAAAGT
1 TAAAAAAGT
46976828 TAAAAAAGT
1 TAAAAAAGT
46976837 T
1 T
46976838 CTAGAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.11, T:0.24
Consensus pattern (9 bp):
TAAAAAAGT
Found at i:46977596 original size:26 final size:26
Alignment explanation
Indices: 46977560--46977669 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
46977550 TGATACAAAT
46977560 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
46977586 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
46977612 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
46977638 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
46977664 TGATAA
1 TGATAA
46977670 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:46984898 original size:5 final size:5
Alignment explanation
Indices: 46984890--46984914 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
46984880 AATACAGTGG
46984890 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
46984915 ATCCATATAG
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:46993513 original size:6 final size:6
Alignment explanation
Indices: 46993505--46993548 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
46993495 TTTAATTTTT
* * * *
46993505 TTAGGT TTAGGC TTAGGG TTAGGG TTAGAG TTAGGA TTAGGG TT
1 TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TT
46993549 TTATTAGTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.20, C:0.02, G:0.39, T:0.39
Consensus pattern (6 bp):
TTAGGG
Found at i:47000741 original size:6 final size:6
Alignment explanation
Indices: 47000730--47000754 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
47000720 TACAAATAGA
47000730 TCATTT TCATTT TCATTT TCATTT T
1 TCATTT TCATTT TCATTT TCATTT T
47000755 TGGAAACCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (6 bp):
TCATTT
Found at i:47005884 original size:10 final size:10
Alignment explanation
Indices: 47005869--47005893 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
47005859 ATCGGCAAAA
47005869 TAAAATATTT
1 TAAAATATTT
47005879 TAAAATATTT
1 TAAAATATTT
47005889 TAAAA
1 TAAAA
47005894 ATTAAAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
TAAAATATTT
Found at i:47011806 original size:55 final size:54
Alignment explanation
Indices: 47011733--47011836 Score: 129
Period size: 54 Copynumber: 1.9 Consensus size: 54
47011723 TTTTTGAGAT
** * *
47011733 TAATGAGGCTTTTTAAAAATGTTAAGAGTGCTTAATT-AATTTTTTTTAAAAGGTA
1 TAATGAGAATTTTCAAAAAT-TTAAG-GGGCTTAATTAAATTTTTTTTAAAAGGTA
* *
47011788 TAATGAGAATTTTCAAAAATTTGAGGGGTTTAATTAAATTTTTTTTAAA
1 TAATGAGAATTTTCAAAAATTTAAGGGGCTTAATTAAATTTTTTTTAAA
47011837 GCTTCAAGGG
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
53 8 0.19
54 17 0.40
55 17 0.40
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (54 bp):
TAATGAGAATTTTCAAAAATTTAAGGGGCTTAATTAAATTTTTTTTAAAAGGTA
Found at i:47012213 original size:15 final size:15
Alignment explanation
Indices: 47012193--47012226 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
47012183 CTATTGTTCA
*
47012193 AGAATAGCTATGTCC
1 AGAATAACTATGTCC
*
47012208 AGAATAACTATGTTC
1 AGAATAACTATGTCC
47012223 AGAA
1 AGAA
47012227 CAAGACTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (15 bp):
AGAATAACTATGTCC
Found at i:47022426 original size:46 final size:45
Alignment explanation
Indices: 47022356--47022625 Score: 270
Period size: 46 Copynumber: 5.9 Consensus size: 45
47022346 TTCTGAAATG
* * *
47022356 AAATGTGTAAAACCATGGTTGAAAGACACCATGGCAACATGATAT
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAT
* * *
47022401 AAATTGTGTAAGACTATGGTTGAAAGATACCATGGCAACAGGATAT
1 AAA-TGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAT
* **
47022447 AAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATGG
1 -AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAT
* * * ** * *
47022493 GAATGAATAAGACCATGGTTGAAAGATACCATGTCAATGTAACAT
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAT
** * * *
47022538 GAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTGACAGA
1 -AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATA-T
* * * * *
47022585 AAATGAGTAAGACCATAGTCGAAAGACACTATGGCATCATG
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
47022626 TCAAAGATAA
Statistics
Matches: 188, Mismatches: 33, Indels: 7
0.82 0.14 0.03
Matches are distributed among these distances:
45 38 0.20
46 147 0.78
47 3 0.02
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (45 bp):
AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAT
Found at i:47022551 original size:91 final size:92
Alignment explanation
Indices: 47022367--47022620 Score: 278
Period size: 91 Copynumber: 2.8 Consensus size: 92
47022357 AATGTGTAAA
* * ** *
47022367 ACCATGGTTGAAAGACACCATGGCAACATGATATAAATTGTGTAAGACTATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACCATGGCAACATGATAGAAATTGAATAAGACCATGGTTGAAAGATACC
* * ***
47022432 ATGGCAACAGGATATAAAATGTGTAAG
66 ATGGCAACAGAACATAAAATGAACAAG
* *
47022459 ACCATGGTTGAAAGATACCATGGCAACATGATGGGAA-TGAATAAGACCATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACCATGGCAACATGATAGAAATTGAATAAGACCATGGTTGAAAGATACC
* * *
47022523 ATGTCAA-TGTAACATGAAATGAACAAG
66 ATGGCAACAG-AACATAAAATGAACAAG
* * * * * * * *
47022550 ACCATGGTTGAAAGATACCATGGCAACCTGACAGAAAATGAGTAAGACCATAGTCGAAAGACACT
1 ACCATGGTTGAAAGATACCATGGCAACATGATAGAAATTGAATAAGACCATGGTTGAAAGATACC
47022615 ATGGCA
66 ATGGCA
47022621 TCATGTCAAA
Statistics
Matches: 135, Mismatches: 25, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
90 1 0.01
91 74 0.55
92 60 0.44
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (92 bp):
ACCATGGTTGAAAGATACCATGGCAACATGATAGAAATTGAATAAGACCATGGTTGAAAGATACC
ATGGCAACAGAACATAAAATGAACAAG
Found at i:47025114 original size:21 final size:21
Alignment explanation
Indices: 47025088--47025140 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
47025078 CGCTGTTTCT
* *
47025088 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACA
*
47025109 AATCTCACTGCTACAGTAACA
1 AATCTCACCGCTACAGTAACA
47025130 AATCTCACCGC
1 AATCTCACCGC
47025141 CACCGCTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.36, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACA
Found at i:47025648 original size:2 final size:2
Alignment explanation
Indices: 47025641--47025676 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
47025631 TAGGGTCACA
47025641 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
47025677 CTGTTGTGTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:47030079 original size:15 final size:17
Alignment explanation
Indices: 47030054--47030088 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
47030044 ACTTGATAGG
47030054 GAAATATAATAG-TGAA
1 GAAATATAATAGATGAA
47030070 GAAA-ATAATAGATGAA
1 GAAATATAATAGATGAA
47030086 GAA
1 GAA
47030089 CAAGTGGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (17 bp):
GAAATATAATAGATGAA
Found at i:47032679 original size:24 final size:24
Alignment explanation
Indices: 47032647--47032694 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
47032637 ATGTGGCAAA
47032647 AACGCTCCCCTAGGGGCGCATTTT
1 AACGCTCCCCTAGGGGCGCATTTT
47032671 AACGCTCCCCTAGGGGCGCATTTT
1 AACGCTCCCCTAGGGGCGCATTTT
47032695 GCTCCGTGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.17, C:0.33, G:0.25, T:0.25
Consensus pattern (24 bp):
AACGCTCCCCTAGGGGCGCATTTT
Found at i:47032985 original size:33 final size:33
Alignment explanation
Indices: 47032891--47033014 Score: 117
Period size: 33 Copynumber: 3.7 Consensus size: 33
47032881 TCTTTTTTAA
** *
47032891 AAATTAATTAAATTAAAGTTTATGGTTTTTAAAT
1 AAATTAATTAAATTAGGGTTTA-GGGTTTTAAAT
* *
47032925 AAATTAAGT-AATTAGGGTTTAAAGGTTTTAAAT
1 AAATTAATTAAATTAGGGTTT-AGGGTTTTAAAT
* *
47032958 AAATTAATTAAATTAGGGATTAGGG-TTTAAGGTT
1 AAATTAATTAAATTAGGGTTTAGGGTTTTAA--AT
*
47032992 AAAATTAATTAAATTAGGATTTA
1 -AAATTAATTAAATTAGGGTTTA
47033015 TTTTTTTAAA
Statistics
Matches: 74, Mismatches: 11, Indels: 9
0.79 0.12 0.10
Matches are distributed among these distances:
32 5 0.07
33 29 0.39
34 20 0.27
35 20 0.27
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (33 bp):
AAATTAATTAAATTAGGGTTTAGGGTTTTAAAT
Found at i:47033218 original size:127 final size:127
Alignment explanation
Indices: 47033077--47033326 Score: 376
Period size: 127 Copynumber: 2.0 Consensus size: 127
47033067 TTTTACCCTG
* * * * *
47033077 AAAAAATAATTTTGAGAAGACGTTTTTGAACAAATAGTGTCAAAAATGCTTTAAGCAGGATGCAC
1 AAAAAATAATTTTGAGAAGACGTTTATGAACAAATAATGTAAAAAATGCTTCAAGCAAGATGCAC
*
47033142 TGTAAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGCTTTTTCTT-GACAGTAGTTCTTAA
66 TGTAAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTTTTT-TTCGACAGTAGTTCTTAA
* *
47033204 AAAAAATATTTTTGAGAAGACGTTTATGAATAAATAATGTAAAAAATGCTTCAAGCAAGATGCAC
1 AAAAAATAATTTTGAGAAGACGTTTATGAACAAATAATGTAAAAAATGCTTCAAGCAAGATGCAC
* * * *
47033269 TGTCAGCAAAATTATTGAAAAAGGCTCCCACGTGGACGCTTTTTTTCTACAGTAGTTC
66 TGTAAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTTTTTTTCGACAGTAGTTC
47033327 ATGTTTGGCC
Statistics
Matches: 110, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
126 2 0.02
127 108 0.98
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (127 bp):
AAAAAATAATTTTGAGAAGACGTTTATGAACAAATAATGTAAAAAATGCTTCAAGCAAGATGCAC
TGTAAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTTTTTTTCGACAGTAGTTCTTAA
Found at i:47036374 original size:24 final size:23
Alignment explanation
Indices: 47036318--47036374 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 23
47036308 AAGAACTTCT
*
47036318 ATTTTATTAAAAATATAAAAATA
1 ATTTTATTAAAAATATAAAAACA
47036341 ATTTAGTATT-AAAATATTAAAAACA
1 ATTT--TATTAAAAATA-TAAAAACA
47036366 ACTTTTATT
1 A-TTTTATT
47036375 TTATTAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 4 0.14
24 10 0.34
25 12 0.41
26 3 0.10
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (23 bp):
ATTTTATTAAAAATATAAAAACA
Found at i:47036812 original size:18 final size:18
Alignment explanation
Indices: 47036771--47036813 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
47036761 GATTGGGAAA
* * *
47036771 AGGAAACATCTAAGGGTT
1 AGGATACATATAAGGGCT
*
47036789 ATGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
47036807 AGGATAC
1 AGGATAC
47036814 GTACCTGGCA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.23
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:47043984 original size:13 final size:14
Alignment explanation
Indices: 47043966--47043998 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
47043956 GTTCCAATGC
47043966 ATGATTTTAA-AAG
1 ATGATTTTAACAAG
47043979 ATGATTTTAATCAAG
1 ATGATTTTAA-CAAG
47043994 ATGAT
1 ATGAT
47043999 ATAATTGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
15 8 0.44
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.39
Consensus pattern (14 bp):
ATGATTTTAACAAG
Found at i:47050460 original size:12 final size:12
Alignment explanation
Indices: 47050443--47050519 Score: 50
Period size: 12 Copynumber: 6.3 Consensus size: 12
47050433 AAGAAACATT
47050443 ATCAAAACT-AGA
1 ATCAAAA-TGAGA
47050455 ATCAAAATGAGA
1 ATCAAAATGAGA
* *
47050467 ATCAGAATCAGA
1 ATCAAAATGAGA
**
47050479 ATC-AGGTGACAGA
1 ATCAAAATG--AGA
*
47050492 ATCAAAATTAGA
1 ATCAAAATGAGA
* *
47050504 ATCAGAATCAGA
1 ATCAAAATGAGA
47050516 ATCA
1 ATCA
47050520 GGTAACAGAA
Statistics
Matches: 50, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
11 2 0.04
12 40 0.80
13 6 0.12
14 2 0.04
ACGTcount: A:0.52, C:0.14, G:0.16, T:0.18
Consensus pattern (12 bp):
ATCAAAATGAGA
Found at i:47050475 original size:6 final size:6
Alignment explanation
Indices: 47050452--47050629 Score: 150
Period size: 6 Copynumber: 28.8 Consensus size: 6
47050442 TATCAAAACT
* * * * *
47050452 AGAATC AAAATG AGAATC AGAATC AGAATC AG-GTGAC AGAATC AAAATT
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
*
47050501 AGAATC AGAATC AGAATC AGGTAA-C AGAATC AGAATC AGTATC AGGTAA-C
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC A-G-AATC
* *
47050551 AGAATC AGAATC AGAACC AGAATC AGAATT AGGTAA-C AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
*
47050600 AGTATC AGGTAA-C AGAATC AGAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAATC AGAAT
47050630 GTCAATGCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 30
0.74 0.10 0.16
Matches are distributed among these distances:
5 9 0.06
6 109 0.78
7 14 0.10
8 7 0.05
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:47050493 original size:37 final size:37
Alignment explanation
Indices: 47050452--47050629 Score: 145
Period size: 37 Copynumber: 4.8 Consensus size: 37
47050442 TATCAAAACT
* *
47050452 AGAATCAAAATGAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAAC
*
47050489 AGAATCAAAATTAGAATCAGAATCAGAATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAAC
* *
47050526 AGAATCAGAATCAGTATCAGGTAA-CAGAATCA-G-AATC
1 AGAATCAAAATCAGAATCA-G-AATCAGAATCAGGTAA-C
* * *
47050563 AGAACCAGAATCAGAATTAGGTAA-CAGAATCA-G-AATC
1 AGAATCAAAATCAGAATCA-G-AATCAGAATCAGGTAA-C
* *
47050600 AGTATCAGGTAA-CAGAATCAGAATCAGAAT
1 AGAATCA--AAATCAGAATCAGAATCAGAAT
47050630 GTCAATGCAA
Statistics
Matches: 123, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
36 4 0.03
37 99 0.80
38 16 0.13
39 4 0.03
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:47050495 original size:25 final size:24
Alignment explanation
Indices: 47050452--47050629 Score: 150
Period size: 25 Copynumber: 7.2 Consensus size: 24
47050442 TATCAAAACT
* *
47050452 AGAATCAAAATGAGAATCAGAATC
1 AGAATCAGAATCAGAATCAGAATC
* * *
47050476 AGAATCAG-GTGACAGAATCAAAATT
1 AGAATCAGAAT--CAGAATCAGAATC
47050501 AGAATCAGAATCAGAATCAGGTAA-C
1 AGAATCAGAATCAGAATCA-G-AATC
*
47050526 AGAATCAGAATCAGTATCAGGTAA-C
1 AGAATCAGAATCAGAATCA-G-AATC
*
47050551 AGAATCAGAATCAGAACCAGAATC
1 AGAATCAGAATCAGAATCAGAATC
*
47050575 AGAATTAGGTAA-CAGAATCAGAATC
1 AGAATCA-G-AATCAGAATCAGAATC
*
47050600 AGTATCAGGTAA-CAGAATCAGAATC
1 AGAATCA-G-AATCAGAATCAGAATC
47050625 AGAAT
1 AGAAT
47050630 GTCAATGCAA
Statistics
Matches: 130, Mismatches: 16, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
23 3 0.02
24 23 0.18
25 99 0.76
26 5 0.04
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (24 bp):
AGAATCAGAATCAGAATCAGAATC
Found at i:47050508 original size:31 final size:31
Alignment explanation
Indices: 47050464--47050629 Score: 173
Period size: 31 Copynumber: 5.4 Consensus size: 31
47050454 AATCAAAATG
*
47050464 AGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
* *
47050495 AAAATTAGAATCAGAATCA-G-AATCAGGTAA-C
1 AGAATCAGAATCAGAATCAGGTAA-CA-G-AATC
*
47050526 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
* *
47050557 AGAATCAGAACCAGAATCA-G-AATTAGGTAA-C
1 AGAATCAGAATCAGAATCAGGTAA-CA-G-AATC
*
47050588 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
47050619 AGAATCAGAAT
1 AGAATCAGAAT
47050630 GTCAATGCAA
Statistics
Matches: 111, Mismatches: 12, Indels: 24
0.76 0.08 0.16
Matches are distributed among these distances:
29 3 0.03
30 9 0.08
31 86 0.77
32 9 0.08
33 4 0.04
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:47050539 original size:62 final size:62
Alignment explanation
Indices: 47050464--47050629 Score: 278
Period size: 62 Copynumber: 2.7 Consensus size: 62
47050454 AATCAAAATG
* * * *
47050464 AGAATCAGAATCAGAATCAGGTGACAGAATCAAAATTAGAATCAGAATCAGAATCAGGTAAC
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAATCAGAATCAGAATCAGGTAAC
* *
47050526 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAATCAGAATCAGAATCAGGTAAC
47050588 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAAT
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAAT
47050630 GTCAATGCAA
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 97 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (62 bp):
AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:47050620 original size:19 final size:19
Alignment explanation
Indices: 47050469--47050601 Score: 130
Period size: 19 Copynumber: 6.8 Consensus size: 19
47050459 AAATGAGAAT
*
47050469 CAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGGTAA
* *
47050488 CAGAATCAAAATTA-G-AA
1 CAGAATCAGAATCAGGTAA
47050505 TCAGAATCAGAATCAGGTAA
1 -CAGAATCAGAATCAGGTAA
47050525 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAG----A--ATCAGGTAA
47050550 CAGAATCAGAATCA-G-AA
1 CAGAATCAGAATCAGGTAA
*
47050567 CCAGAATCAGAATTAGGTAA
1 -CAGAATCAGAATCAGGTAA
47050587 CAGAATCAGAATCAG
1 CAGAATCAGAATCAG
47050602 TATCAGGTAA
Statistics
Matches: 95, Mismatches: 7, Indels: 24
0.75 0.06 0.19
Matches are distributed among these distances:
17 3 0.03
18 27 0.28
19 41 0.43
20 4 0.04
21 1 0.01
23 1 0.01
25 18 0.19
ACGTcount: A:0.47, C:0.16, G:0.20, T:0.17
Consensus pattern (19 bp):
CAGAATCAGAATCAGGTAA
Found at i:47050904 original size:27 final size:26
Alignment explanation
Indices: 47050856--47050907 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
47050846 GCGAGGCTGC
*
47050856 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
47050882 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
47050908 TTGCAGCGAG
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:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:47051209 original size:27 final size:27
Alignment explanation
Indices: 47051153--47051408 Score: 246
Period size: 27 Copynumber: 9.2 Consensus size: 27
47051143 GGGTAAAATG
* * * * *
47051153 GTAATTTTACCCCACA-AGGTATCTCC
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
47051179 GTAATTCTACCTTACAGGAGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
47051206 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
47051233 GTATTTTTACCCTACAAGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
47051259 GATAATTATACCCTACAGGGGTATTTTA
1 G-TAATTCTACCCTACAGGGGTATTTCA
47051287 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
47051314 GTATTTCTACCCTACAGGGGTATTTCGGTA
1 GTAATTCTACCCTACAGGGGTATTTC---A
* * *
47051344 TTTCGGTATTTTTACCCTACAGGGGTATTTCG
1 -----GTAATTCTACCCTACAGGGGTATTTCA
* *
47051376 GTATTTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
47051403 GTAATT
1 GTAATT
47051409 TTGTAAATCA
Statistics
Matches: 195, Mismatches: 24, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
26 14 0.07
27 154 0.79
28 1 0.01
30 1 0.01
35 25 0.13
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:47051283 original size:81 final size:81
Alignment explanation
Indices: 47051152--47051410 Score: 290
Period size: 81 Copynumber: 3.1 Consensus size: 81
47051142 GGGGTAAAAT
* * * * *
47051152 GGTAATTTTACCCCACAA-GGTATCTCCG-TAATTCTACCTTACAGGAGTATTTCAGTAATTCTA
1 GGTAATTTTACCCTACAAGGGTAT-TTCGATAATTATACCCTACAGGGGTATTTCAGTAATTCTA
47051215 CCCTACAGGGGTATTTC
65 CCCTACAGGGGTATTTC
* *
47051232 GGTATTTTTACCCTACAAGGGTATTTCGATAATTATACCCTACAGGGGTATTTTAGTAATTCTAC
1 GGTAATTTTACCCTACAAGGGTATTTCGATAATTATACCCTACAGGGGTATTTCAGTAATTCTAC
47051297 CCTACAGGGGTATTTC
66 CCTACAGGGGTATTTC
* * * * *
47051313 AGT-ATTTCTACCCTACAGGGGTATTTCGGTATTTCGGTATTTTTACCCTACAGGGGTATTTCGG
1 GGTAATTT-TACCCTACAAGGGTATTTC-G-A------TAATTATACCCTACAGGGGTATTTCAG
*
47051377 TATTTCTACCCTACAGGGGTATTTC
57 TAATTCTACCCTACAGGGGTATTTC
47051402 GGTAATTTT
1 GGTAATTTT
47051411 GTAAATCAAG
Statistics
Matches: 151, Mismatches: 16, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
80 22 0.15
81 73 0.48
82 1 0.01
83 1 0.01
89 50 0.33
90 4 0.03
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (81 bp):
GGTAATTTTACCCTACAAGGGTATTTCGATAATTATACCCTACAGGGGTATTTCAGTAATTCTAC
CCTACAGGGGTATTTC
Found at i:47051344 original size:35 final size:35
Alignment explanation
Indices: 47051305--47051382 Score: 138
Period size: 35 Copynumber: 2.2 Consensus size: 35
47051295 ACCCTACAGG
47051305 GGTATTTCAGTATTTCTACCCTACAGGGGTATTTC
1 GGTATTTCAGTATTTCTACCCTACAGGGGTATTTC
* *
47051340 GGTATTTCGGTATTTTTACCCTACAGGGGTATTTC
1 GGTATTTCAGTATTTCTACCCTACAGGGGTATTTC
47051375 GGTATTTC
1 GGTATTTC
47051383 TACCCTACAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (35 bp):
GGTATTTCAGTATTTCTACCCTACAGGGGTATTTC
Found at i:47051423 original size:27 final size:27
Alignment explanation
Indices: 47051393--47051839 Score: 401
Period size: 27 Copynumber: 16.6 Consensus size: 27
47051383 TACCCTACAG
* * *
47051393 GGGTATTTCGGTAATTTTGTAAATCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
*** * * * *
47051420 GGGTAAAATAGTAATTCTGTAAATCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * ** *
47051447 GGTTACTTTGGTAATTTTATAAGTCGA
1 GGGTATTTTGGTAATTTTATAAACCAA
*** *****
47051474 GGGTATTTCAATAATTTTATAGGTTGA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * * * *
47051501 GGGTATTTTAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
47051528 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
47051555 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAA
47051582 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
47051609 TGGTATTTTAGTAA-TTTACAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
**
47051635 GGGTATTTTGGTAATTTGGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
*
47051662 GGGTATTTTGGTAATTTTATAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
47051689 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
* *
47051716 GGGTATTTTGGTAATTTTGTAAACTAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * * *
47051743 TGGTATTTTGGTAATTGTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
* *
47051770 GGGTATTTTGGTGATTTTATAAACTAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
47051797 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
47051824 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
47051840 CGGTAAACTA
Statistics
Matches: 343, Mismatches: 76, Indels: 2
0.81 0.18 0.00
Matches are distributed among these distances:
26 23 0.07
27 320 0.93
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:47051847 original size:27 final size:27
Alignment explanation
Indices: 47051501--47051839 Score: 410
Period size: 27 Copynumber: 12.6 Consensus size: 27
47051491 TATAGGTTGA
* * * *
47051501 GGGTATTTTAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTATAAACCAG
* *
47051528 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAG
* *
47051555 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAG
*
47051582 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAG
* * * *
47051609 TGGTATTTTAGTAA-TTTACAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAG
** *
47051635 GGGTATTTTGGTAATTTGGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAG
47051662 GGGTATTTTGGTAATTTTATAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAG
* *
47051689 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAG
* * *
47051716 GGGTATTTTGGTAATTTTGTAAACTAA
1 GGGTATTTTGGTAATTTTATAAACCAG
* * *
47051743 TGGTATTTTGGTAATTGTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAG
* * *
47051770 GGGTATTTTGGTGATTTTATAAACTAA
1 GGGTATTTTGGTAATTTTATAAACCAG
* *
47051797 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAG
47051824 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
47051840 CGGTAAACTA
Statistics
Matches: 266, Mismatches: 45, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 23 0.09
27 243 0.91
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAG
Found at i:47057460 original size:34 final size:34
Alignment explanation
Indices: 47057421--47057489 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
47057411 GTTGATGTTG
*
47057421 TTACTAATAAATTCATGGCAACTCAGTAATTTGC
1 TTACTAATAAATTCAAGGCAACTCAGTAATTTGC
*
47057455 TTACTAATAAATTCAAGGCAACTGAGTAATTTGC
1 TTACTAATAAATTCAAGGCAACTCAGTAATTTGC
47057489 T
1 T
47057490 AACTTATGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (34 bp):
TTACTAATAAATTCAAGGCAACTCAGTAATTTGC
Found at i:47058183 original size:33 final size:33
Alignment explanation
Indices: 47058136--47058202 Score: 118
Period size: 33 Copynumber: 2.0 Consensus size: 33
47058126 TCCTCCTTCT
47058136 CTGCTTGTCTTGTTGAACCTAGGCTTCCA-GAA
1 CTGCTTGTCTTGTTGAACCTAGGCTTCCACGAA
47058168 CTGCTTGTTCTTGTTGAACCTAGGCTTCCACGAA
1 CTGCTTG-TCTTGTTGAACCTAGGCTTCCACGAA
47058202 C
1 C
47058203 ACATGAATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 7 0.21
33 22 0.67
34 4 0.12
ACGTcount: A:0.18, C:0.27, G:0.21, T:0.34
Consensus pattern (33 bp):
CTGCTTGTCTTGTTGAACCTAGGCTTCCACGAA
Found at i:47058845 original size:257 final size:258
Alignment explanation
Indices: 47058346--47058865 Score: 670
Period size: 257 Copynumber: 2.0 Consensus size: 258
47058336 TAGGTTTGAG
* * ** *
47058346 ATGTGTTTGAAGTAAGAAACCAATGGGGGTATTTATAGGTTGAGAAGGTTGCTAAAAATAGCAAA
1 ATGTGTTTGAAGTAAGAAACCAAAGGGGGTATTTATAGGTAGAGAAGACTGCTAAAAATAGAAAA
* * * *
47058411 AACCATCAGCCAAAGACTCCCCCCATGGCCAGCCACACATGTGGCATGTTTGAATATTTTAAACA
66 AACCAGCAGCCAAAGACTCCCCCCATGGCCAGCCACACATGTGGCAAGTTTGAAGATTTCAAACA
* * * ** *
47058476 TGCTATTTTTAGGTAGGGGCAAATCTTGAAAGGCATGAATAGTGGAGGGGTTTGAAGGCAAACTG
131 TGCTATTTTAAGGTAGGGACAAATCTAGAAAGGCAAAAATAATGGAGGGGTTTGAAGGCAAACTG
* * * * *
47058541 AAAGAGTCTTCAAAGGACATTTTGCATGCCAAATTATCTGCCAAACAAGCTGATTGGGTCAGC
196 AAAGAGTCTTCAAAGGACATTTTGAAAGCCAAATAATCTGCCAAACAAACTAATTGGGTCAGC
* * *
47058604 ATGTGTTTGAAGTAAG-AAGCAAAGGGGGTATTTATAGGTAGAGATGACTGCTAAAATTAGAAAA
1 ATGTGTTTGAAGTAAGAAACCAAAGGGGGTATTTATAGGTAGAGAAGACTGCTAAAAATAGAAAA
* * * * * *
47058668 AATCAGCAGCCATAGAGTCCCCCCATGGCCGGCCACACATGTGGCAAGTTTGAAGGTTTCAAACT
66 AACCAGCAGCCAAAGACTCCCCCCATGGCCAGCCACACATGTGGCAAGTTTGAAGATTTCAAACA
* *
47058733 TGCTATTTTAAGGTAGGGACAAATCTAGAAAGGCAAAAATAATGGAGGGGTTTGAATG-AAATTT
131 TGCTATTTTAAGGTAGGGACAAATCTAGAAAGGCAAAAATAATGGAGGGGTTTGAAGGCAAA-CT
* * * *
47058797 GAAGGAGTCTTC-AAGGGCTATTTTGAAAGCTAAATAAT-TAGTCAAACAAACTAATTGGGTCAG
195 GAAAGAGTCTTCAAAGGAC-ATTTTGAAAGCCAAATAATCT-GCCAAACAAACTAATTGGGTCAG
47058860 C
258 C
47058861 ATGTG
1 ATGTG
47058866 GGACGATTTT
Statistics
Matches: 224, Mismatches: 35, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
256 9 0.04
257 199 0.89
258 16 0.07
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.26
Consensus pattern (258 bp):
ATGTGTTTGAAGTAAGAAACCAAAGGGGGTATTTATAGGTAGAGAAGACTGCTAAAAATAGAAAA
AACCAGCAGCCAAAGACTCCCCCCATGGCCAGCCACACATGTGGCAAGTTTGAAGATTTCAAACA
TGCTATTTTAAGGTAGGGACAAATCTAGAAAGGCAAAAATAATGGAGGGGTTTGAAGGCAAACTG
AAAGAGTCTTCAAAGGACATTTTGAAAGCCAAATAATCTGCCAAACAAACTAATTGGGTCAGC
Found at i:47064170 original size:46 final size:47
Alignment explanation
Indices: 47064083--47064174 Score: 134
Period size: 46 Copynumber: 2.0 Consensus size: 47
47064073 CATACTGAAA
* * *
47064083 TCTTCGATCTGTTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATG
1 TCTTCGATCTGTTTCGCTGTAAACACAGGAATGCCAAATCTGCTATG
47064130 TCTTCGATCTGTTTC-CTGTAAACACAGCG-ATGCCAAATCTGCTAT
1 TCTTCGATCTGTTTCGCTGTAAACACAG-GAATGCCAAATCTGCTAT
47064175 CTTCAACTTG
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
46 25 0.61
47 16 0.39
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.34
Consensus pattern (47 bp):
TCTTCGATCTGTTTCGCTGTAAACACAGGAATGCCAAATCTGCTATG
Found at i:47064194 original size:134 final size:135
Alignment explanation
Indices: 47064022--47064313 Score: 399
Period size: 134 Copynumber: 2.2 Consensus size: 135
47064012 GTTGAATATG
* * * * *
47064022 GAGATGTCGAATCTACTATCTTCAACTTGTTCCCTATAAACATACGGATGCCATACTGAAATCTT
1 GAGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACACGGATGCCATACTAAAATCTT
* *
47064087 CGATCTGTTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATGTCTTCGATCTGTT-TCCTGT-A
66 CGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTACTATGTCTTCGATCTGTTCTCC-GTCA
47064150 AACACA
130 AACACA
* * * **
47064156 GCGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGTCATGTTAAAATCTT
1 GAGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACACGGATGCCATACTAAAATCTT
* * *
47064221 TGATCTGCTTCGCTGTAAGTACAGGAATGTCAGATCTACTATGTCTTCGATCTGTTCTCCGTCGA
66 CGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTACTATGTCTTCGATCTGTTCTCCGTCAA
* *
47064286 ATATA
131 ACACA
*
47064291 GAGATGCCAAATCTGTTATCTTC
1 GAGATGCCAAATCTGCTATCTTC
47064314 GATTTGTCCT
Statistics
Matches: 137, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
134 109 0.80
135 28 0.20
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (135 bp):
GAGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACACGGATGCCATACTAAAATCTT
CGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTACTATGTCTTCGATCTGTTCTCCGTCAA
ACACA
Found at i:47064198 original size:44 final size:44
Alignment explanation
Indices: 47064031--47064205 Score: 117
Period size: 44 Copynumber: 3.9 Consensus size: 44
47064021 GGAGATGTCG
* *
47064031 AATCTACTATCTTCAA-CTTGTTCCCTATAAACATA-CGGATGCCA
1 AATCTGCTATCTTCAATC-TGTTCCCTATAAACACAGC-GATGCCA
* ** * * * * *
47064075 TA-CTGAAATCTTCGATCTGTTTCGCTGTAAGCACAG-GAATGTCA
1 AATCTGCTATCTTCAATCTG-TTCCCTATAAACACAGCG-ATGCCA
* * * *
47064119 GATCTGCTATGTCTTCGATCTGTTTCCTGTAAACACAGCGATGCCA
1 AATCTGCTA--TCTTCAATCTGTTCCCTATAAACACAGCGATGCCA
*
47064165 AATCTGCTATCTTCAA-CTTGTTCCCTATAAACACAGGGATG
1 AATCTGCTATCTTCAATC-TGTTCCCTATAAACACAGCGATG
47064206 TCATGTTAAA
Statistics
Matches: 100, Mismatches: 22, Indels: 18
0.71 0.16 0.13
Matches are distributed among these distances:
43 13 0.13
44 45 0.45
45 4 0.04
46 26 0.26
47 12 0.12
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (44 bp):
AATCTGCTATCTTCAATCTGTTCCCTATAAACACAGCGATGCCA
Found at i:47064740 original size:87 final size:85
Alignment explanation
Indices: 47064334--47064745 Score: 267
Period size: 87 Copynumber: 4.7 Consensus size: 85
47064324 CTAACAATAC
* * * *
47064334 AGAGATGCCAAATCATCTTGGATCTGCTTCAGTGTAAACATCTGAAGGTCAGATCTACTATGTCT
1 AGAGATGCCAAATCATCTTGGATCTGCTTTAGTATAAACATCTGAAGGTTAGATCTGCTATG--T
* *
47064399 TCGATTTGCTCCTTGT-AAACA-
64 T-GATCTGTTCCTTGTCAAACAT
* *
47064420 CGAGGATGCCAAATCATCTTGGATCTG-TTTCAGTATAAACATCTGAAGGTTAGATCTGTTATG-
1 AGA-GATGCCAAATCATCTTGGATCTGCTTT-AGTATAAACATCTGAAGGTTAGATCTGCTATGT
* *
47064483 TG-TCTGCTCTCC--GTCGAATAT
64 TGATCTG-T-TCCTTGTCAAACAT
* * * * * *
47064504 GGAGACGTCAAATCTGTTATCTTGGATCTACTTTAGTA-AAATCATATGAAGGTTAGATCTGTTA
1 AGAGATGCCAAATC----ATCTTGGATCTGCTTTAGTATAAA-CATCTGAAGGTTAGATCTGCTA
* *
47064568 TG-T-ATCTG-CCCTTCGTCGAA-AT
61 TGTTGATCTGTTCCTT-GTCAAACAT
* * * * * * *
47064590 GGAGATGCCAGATCTATTATCTTGGATCTGCTTTGGTGTGAGAACATCTGAAAGTCAAATCTGCT
1 AGAGATGCCA-A---ATCATCTTGGATCTGCTTTAGTAT-A-AACATCTGAAGGTTAGATCTGCT
* *
47064655 ATGTCTTCGATTTGTTCCTTGT-AAACAC
60 ATG--TT-GATCTGTTCCTTGTCAAACAT
*
47064683 A-AGAATGCCAAAACATCTTGGATCTGCTTTAGTATAAACATCTGAAGGTTAGATCTGCTATGT
1 AGAG-ATGCCAAATCATCTTGGATCTGCTTTAGTATAAACATCTGAAGGTTAGATCTGCTATGT
47064746 GTATGCCCTC
Statistics
Matches: 256, Mismatches: 39, Indels: 63
0.72 0.11 0.18
Matches are distributed among these distances:
82 5 0.02
83 13 0.05
84 8 0.03
85 1 0.00
86 34 0.13
87 124 0.48
88 24 0.09
89 22 0.09
90 2 0.01
91 1 0.00
92 5 0.02
93 13 0.05
94 4 0.02
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.34
Consensus pattern (85 bp):
AGAGATGCCAAATCATCTTGGATCTGCTTTAGTATAAACATCTGAAGGTTAGATCTGCTATGTTG
ATCTGTTCCTTGTCAAACAT
Found at i:47064788 original size:87 final size:86
Alignment explanation
Indices: 47064435--47064834 Score: 294
Period size: 87 Copynumber: 4.6 Consensus size: 86
47064425 ATGCCAAATC
* * *
47064435 ATCTTGGATCTG-TTTCAGTATAAACATCTGAAGGTTAGATCTGTTATGTGTCTGCTCTCCGTCG
1 ATCTTGGATCTGCTTT-AGTATAAACATCTGAAGGTTAGATCTGCTATGTGTATGCCCTCCGTCG
*
47064499 AATATGGAGACGTCAAATCTGTT
65 AA-ATGGAGACGCCAAATCTGTT
* * * * * *
47064522 ATCTTGGATCTACTTTAGTA-AAATCATATGAAGGTTAGATCTGTTATGTATCTGCCCTTCGTCG
1 ATCTTGGATCTGCTTTAGTATAAA-CATCTGAAGGTTAGATCTGCTATGTGTATGCCCTCCGTCG
* * *
47064586 AAATGGAGATGCCAGATCTATT
65 AAATGGAGACGCCAAATCTGTT
* * * * * * ****
47064608 ATCTTGGATCTGCTTTGGTGTGAGAACATCTGAAAGTCAAATCTGCTATGTCTTCGATTTGTTCC
1 ATCTTGGATCTGCTTTAGTAT-A-AACATCTGAAGGTTAGATCTGCTATGT-GT--ATGCCCTCC
* *** * *
47064673 -TTGTAAACACAAGAATGCCAAAAC----
61 GTCG-AAA-TGGAG-ACGCCAAATCTGTT
*
47064697 ATCTTGGATCTGCTTTAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTATGCCCTCCATCGA
1 ATCTTGGATCTGCTTTAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTATGCCCTCCGTCGA
*
47064762 ATATGGAGACGCCAGATCTGTT
66 A-ATGGAGACGCCAAATCTGTT
* * * *
47064784 ATCTTGGA-CTGCTTTGATGTGAAAAACATCTGAAAGTCAAATCTGCTATGT
1 ATCTTGGATCTGCTTT-A-GT-ATAAACATCTGAAGGTTAGATCTGCTATGT
47064835 CTTTGATTTG
Statistics
Matches: 242, Mismatches: 51, Indels: 38
0.73 0.15 0.11
Matches are distributed among these distances:
83 7 0.03
84 9 0.04
85 3 0.01
86 44 0.18
87 86 0.36
88 27 0.11
89 48 0.20
90 2 0.01
91 6 0.02
92 2 0.01
93 8 0.03
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.34
Consensus pattern (86 bp):
ATCTTGGATCTGCTTTAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTATGCCCTCCGTCGA
AATGGAGACGCCAAATCTGTT
Found at i:47064823 original size:176 final size:176
Alignment explanation
Indices: 47064521--47064925 Score: 539
Period size: 176 Copynumber: 2.3 Consensus size: 176
47064511 TCAAATCTGT
* * * * * *
47064521 TATCTTGGATCTACTTTAGTA-AAATCATATGAAGGTTAGATCTGTTATGTATCTGCCCTTCGTC
1 TATCTTGGATCTGCTTTAGTATAAA-CATCTGAAGGTTAGATCTGCTATGTATATGCCCTCCATC
* * *
47064585 GAAATGGAGATGCCAGATCTATTATCTTGGATCTGCTTTGGTGTGAGAACATCTGAAAGTCAAAT
65 GAAATGGAGACGCCAGATCTATTATCTTGGATCTGCTTTGATGTGAAAACATCTGAAAGTCAAAT
47064650 CTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAAAC
130 CTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAAAC
*
47064697 -ATCTTGGATCTGCTTTAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTATGCCCTCCATCG
1 TATCTTGGATCTGCTTTAGTATAAACATCTGAAGGTTAGATCTGCTATGTATATGCCCTCCATCG
*
47064761 AATATGGAGACGCCAGATCTGTTATCTTGGA-CTGCTTTGATGTGAAAAACATCTGAAAGTCAAA
66 AA-ATGGAGACGCCAGATCTATTATCTTGGATCTGCTTTGATGTG-AAAACATCTGAAAGTCAAA
* * * *
47064825 TCTGCTATGTCTTTGATTTGTTCCTTGTAAAGACAAGAATGTCAAATC
129 TCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAAAC
* * **
47064873 TTGTTATCTTGGATCTGCTTCAGTGTAAACA-CGTGAAGGCCAGATCTGCTATG
1 ----TATCTTGGATCTGCTTTAGTATAAACATC-TGAAGGTTAGATCTGCTATG
47064926 CTTTGGATTG
Statistics
Matches: 201, Mismatches: 19, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
175 67 0.33
176 91 0.45
180 1 0.00
181 42 0.21
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (176 bp):
TATCTTGGATCTGCTTTAGTATAAACATCTGAAGGTTAGATCTGCTATGTATATGCCCTCCATCG
AAATGGAGACGCCAGATCTATTATCTTGGATCTGCTTTGATGTGAAAACATCTGAAAGTCAAATC
TGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAAAC
Found at i:47068920 original size:53 final size:53
Alignment explanation
Indices: 47068857--47068957 Score: 184
Period size: 53 Copynumber: 1.9 Consensus size: 53
47068847 AAATATGGAA
* *
47068857 AAAGAAATTTTATTGAAGAGAAATATGAAAGATCAAAAGACTTTTGGGTGAAC
1 AAAGAAATTTTATTGAAAAGAAATATGAAAGAACAAAAGACTTTTGGGTGAAC
47068910 AAAGAAATTTTATTGAAAAGAAATATGAAAGAACAAAAGACTTTTGGG
1 AAAGAAATTTTATTGAAAAGAAATATGAAAGAACAAAAGACTTTTGGG
47068958 GGAGAGTGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.50, C:0.05, G:0.20, T:0.26
Consensus pattern (53 bp):
AAAGAAATTTTATTGAAAAGAAATATGAAAGAACAAAAGACTTTTGGGTGAAC
Found at i:47070226 original size:118 final size:118
Alignment explanation
Indices: 47069899--47070208 Score: 620
Period size: 118 Copynumber: 2.6 Consensus size: 118
47069889 TTACCAAACA
47069899 CGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAGTC
1 CGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAGTC
47069964 AGTCACGATTTGAGCCATACTCATAACCTCGACTAGCGGAGTTTTACTTGTCT
66 AGTCACGATTTGAGCCATACTCATAACCTCGACTAGCGGAGTTTTACTTGTCT
47070017 CGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAGTC
1 CGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAGTC
47070082 AGTCACGATTTGAGCCATACTCATAACCTCGACTAGCGGAGTTTTACTTGTCT
66 AGTCACGATTTGAGCCATACTCATAACCTCGACTAGCGGAGTTTTACTTGTCT
47070135 CGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAGTC
1 CGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAGTC
47070200 AGTCACGAT
66 AGTCACGAT
47070209 CTATACTGTA
Statistics
Matches: 192, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
118 192 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (118 bp):
CGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAGTC
AGTCACGATTTGAGCCATACTCATAACCTCGACTAGCGGAGTTTTACTTGTCT
Found at i:47071040 original size:43 final size:42
Alignment explanation
Indices: 47070993--47071085 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
47070983 TGAAAAGGGG
* * * *
47070993 TGTTTGGCTGCAG-GTTTTGGGGATTTTAAGGCTGGAATAGGAC
1 TGTTTGGCTGCAGAGATAT-GGCATTTT-AGGCTGGAATAGAAC
*
47071036 TGTTTGGCTGCAGAGATATGGCATTTTGGGCTGGAATAGAAC
1 TGTTTGGCTGCAGAGATATGGCATTTTAGGCTGGAATAGAAC
47071078 TGTTTGGC
1 TGTTTGGC
47071086 AGCATGGATA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
42 21 0.48
43 20 0.45
44 3 0.07
ACGTcount: A:0.19, C:0.11, G:0.35, T:0.34
Consensus pattern (42 bp):
TGTTTGGCTGCAGAGATATGGCATTTTAGGCTGGAATAGAAC
Found at i:47085836 original size:4 final size:4
Alignment explanation
Indices: 47085829--47085857 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
47085819 GTTTAATAAA
47085829 TATT TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT T
47085858 TCTTTTGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:47086237 original size:43 final size:43
Alignment explanation
Indices: 47086189--47086297 Score: 111
Period size: 43 Copynumber: 2.6 Consensus size: 43
47086179 TATGTGATTC
* * *
47086189 CGATATATGTGTACGTGTAAGACCATGT-TTGAGACGTTGGCAT
1 CGATATATGTGTACATGTAAGACCATGTCTCG-GACATTGGCAT
*
47086232 CGATATGTGAT-TACATGTAAGACCATGTCTCGGACATTGGCAT
1 CGATATATG-TGTACATGTAAGACCATGTCTCGGACATTGGCAT
47086275 C-A-ATATGTGATTACA-GTAAGACC
1 CGATATATGTG--TACATGTAAGACC
47086298 TCGTCTGGGA
Statistics
Matches: 56, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
40 1 0.02
41 4 0.07
42 9 0.16
43 39 0.70
44 3 0.05
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (43 bp):
CGATATATGTGTACATGTAAGACCATGTCTCGGACATTGGCAT
Found at i:47086314 original size:42 final size:43
Alignment explanation
Indices: 47086204--47086316 Score: 142
Period size: 43 Copynumber: 2.7 Consensus size: 43
47086194 TATGTGTACG
* *
47086204 TGTAAGACCATGT-TTGAGACGTTGGCATCGATATGTGATTACA
1 TGTAAGACCATGTCTCG-GACGTTGGCATCAATATGTGATTACA
*
47086247 TGTAAGACCATGTCTCGGACATTGGCATCAATATGTGATTACA
1 TGTAAGACCATGTCTCGGACGTTGGCATCAATATGTGATTACA
* *
47086290 -GTAAGACC-TCGTCTGGGATGTTGGCAT
1 TGTAAGACCAT-GTCTCGGACGTTGGCAT
47086317 TGTACGATAT
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
41 1 0.02
42 22 0.35
43 37 0.60
44 2 0.03
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTCGGACGTTGGCATCAATATGTGATTACA
Found at i:47086745 original size:19 final size:19
Alignment explanation
Indices: 47086721--47086818 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
47086711 AATCTTTAAG
*
47086721 GATATGCAATATTAGATAT
1 GATATGCAATCTTAGATAT
47086740 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
47086759 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
47086776 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
47086795 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
47086816 GAT
1 GAT
47086819 CTTGTAATCT
Statistics
Matches: 74, Mismatches: 1, Indels: 6
0.91 0.01 0.07
Matches are distributed among these distances:
17 17 0.23
19 48 0.65
21 9 0.12
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:47086751 original size:36 final size:35
Alignment explanation
Indices: 47086711--47086796 Score: 106
Period size: 36 Copynumber: 2.4 Consensus size: 35
47086701 ATGGAAATAT
47086711 AATCTTTAAGGATATG-CAATATTAGATATGATATGC
1 AATCTTT-A-GATATGACAATATTAGATATGATATGC
*
47086747 AATC-TTAGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAGATATG--ACAATATTAGATATGATATGC
47086783 AATC-TTAGATATGA
1 AATCTTTAGATATGA
47086797 TATGCAATCT
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
33 6 0.13
34 2 0.04
35 2 0.04
36 36 0.78
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.36
Consensus pattern (35 bp):
AATCTTTAGATATGACAATATTAGATATGATATGC
Found at i:47086757 original size:14 final size:15
Alignment explanation
Indices: 47086740--47086796 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
47086730 TATTAGATAT
47086740 GATATG-CAATCTTA
1 GATATGACAATCTTA
47086754 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
47086771 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
47086790 GATATGA
1 GATATGA
47086797 TATGCAATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.16
17 18 0.47
19 14 0.37
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:47086797 original size:36 final size:37
Alignment explanation
Indices: 47086721--47086818 Score: 144
Period size: 36 Copynumber: 2.6 Consensus size: 37
47086711 AATCTTTAAG
*
47086721 GATATGCAATATTAGATATGATATGCAATCTTAGATAT
1 GATA-GCAATCTTAGATATGATATGCAATCTTAGATAT
47086759 GATA-CAATCTTAGATATGATATGCAATCTTAGATAT
1 GATAGCAATCTTAGATATGATATGCAATCTTAGATAT
47086795 GATATGCAATCTTGAAGATATGAT
1 GATA-GCAATCTT--AGATATGAT
47086819 CTTGTAATCT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
36 35 0.64
38 11 0.20
40 9 0.16
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (37 bp):
GATAGCAATCTTAGATATGATATGCAATCTTAGATAT
Found at i:47089524 original size:12 final size:12
Alignment explanation
Indices: 47089507--47089531 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47089497 TAAAGTTATC
47089507 AAAAAGAGAAAG
1 AAAAAGAGAAAG
47089519 AAAAAGAGAAAG
1 AAAAAGAGAAAG
47089531 A
1 A
47089532 GAGAAGAGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AAAAAGAGAAAG
Found at i:47092051 original size:1 final size:1
Alignment explanation
Indices: 47092045--47092101 Score: 51
Period size: 1 Copynumber: 57.0 Consensus size: 1
47092035 CTTCTATTTC
* * * * * * *
47092045 AAAAAAAAAGAAAAAAAGAAAAAAAAGAAAAAGAAAAAAGAGAAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
47092102 TGGAGAGGCC
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (1 bp):
A
Found at i:47092060 original size:8 final size:8
Alignment explanation
Indices: 47092047--47092100 Score: 76
Period size: 8 Copynumber: 6.9 Consensus size: 8
47092037 TCTATTTCAA
47092047 AAAAAAAG
1 AAAAAAAG
47092055 AAAAAAAG
1 AAAAAAAG
47092063 AAAAAAA-
1 AAAAAAAG
*
47092070 AGAAAAAG
1 AAAAAAAG
47092078 -AAAAAAG
1 AAAAAAAG
47092085 AGAAAAAAG
1 A-AAAAAAG
47092094 AAAAAAA
1 AAAAAAA
47092101 ATGGAGAGGC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
7 12 0.29
8 21 0.51
9 8 0.20
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:47092060 original size:9 final size:9
Alignment explanation
Indices: 47092046--47092101 Score: 61
Period size: 9 Copynumber: 6.9 Consensus size: 9
47092036 TTCTATTTCA
47092046 AAAAAAAAG
1 AAAAAAAAG
47092055 -AAAAAAAG
1 AAAAAAAAG
47092063 AAAAAAAAG
1 AAAAAAAAG
47092072 ---AAAAAG
1 AAAAAAAAG
47092078 --AAAAAAG
1 AAAAAAAAG
*
47092085 AGAAAAAAG
1 AAAAAAAAG
47092094 AAAAAAAA
1 AAAAAAAA
47092102 TGGAGAGGCC
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
6 6 0.14
7 6 0.14
8 8 0.19
9 22 0.52
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:47092068 original size:15 final size:15
Alignment explanation
Indices: 47092048--47092099 Score: 79
Period size: 15 Copynumber: 3.4 Consensus size: 15
47092038 CTATTTCAAA
47092048 AAAAAAGAAAAAAAG
1 AAAAAAGAAAAAAAG
47092063 AAAAAA-AAGAAAAAG
1 AAAAAAGAA-AAAAAG
47092078 AAAAAAGAGAAAAAAG
1 AAAAAAGA-AAAAAAG
47092094 AAAAAA
1 AAAAAA
47092100 AATGGAGAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
14 2 0.06
15 18 0.53
16 13 0.38
17 1 0.03
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAAAG
Found at i:47092108 original size:22 final size:22
Alignment explanation
Indices: 47092045--47092098 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
47092035 CTTCTATTTC
*
47092045 AAAA-AAAAAGAAAAAAAGAAAA
1 AAAAGAAAAAG-AAAAAAGAGAA
47092067 AAAAGAAAAAGAAAAAAGAGAA
1 AAAAGAAAAAGAAAAAAGAGAA
47092089 AAAAGAAAAA
1 AAAAGAAAAA
47092099 AAATGGAGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 24 0.80
23 6 0.20
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (22 bp):
AAAAGAAAAAGAAAAAAGAGAA
Found at i:47093324 original size:132 final size:130
Alignment explanation
Indices: 47093028--47093405 Score: 540
Period size: 132 Copynumber: 2.9 Consensus size: 130
47093018 AGATCTAACC
* ** * * * *
47093028 TTCAAGTATTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTGTCAGGGAGCAGAT
1 TTCACGTATTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGAT
* *
47093093 CGAAGATACCAGATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTAATTTGGC
66 CGAAGATA-CAGATTTGGCATCTCTGTATTGGTAGAGAGCAGATCGAAGACATAGCTAATTTGGC
47093158 T
130 T
* *
47093159 TTCACGTATTTACGTTGAAGCAAACCTAAGATGATTTAGCATCTCTGTATTGGCAGAGAGCAGAT
1 TTCACGTATTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGAT
* *
47093224 CGAAGATGACTGATTTGGCATCTCTGTATTCGGTAGAGAGCAGATCGAAGACATAGCTGATTTGG
66 CGAAGAT-ACAGATTTGGCATCTCTGTATT-GGTAGAGAGCAGATCGAAGACATAGCTAATTTGG
47093289 CT
129 CT
** * *
47093291 TTCATTTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGTAGAT
1 TTCACGTATTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGAT
* * *
47093356 TGAAGATAACAGATTTGGCATCTCTGTATTGGTAGAGAACAGATCAAAGA
66 CGAAGAT-ACAGATTTGGCATCTCTGTATTGGTAGAGAGCAGATCGAAGA
47093406 TGACAGATTT
Statistics
Matches: 221, Mismatches: 24, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
131 101 0.46
132 120 0.54
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (130 bp):
TTCACGTATTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGAT
CGAAGATACAGATTTGGCATCTCTGTATTGGTAGAGAGCAGATCGAAGACATAGCTAATTTGGCT
Found at i:47093379 original size:176 final size:176
Alignment explanation
Indices: 47093191--47093993 Score: 1363
Period size: 176 Copynumber: 4.6 Consensus size: 176
47093181 AACCTAAGAT
* * * * *
47093191 GATTTAGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATGACTGATTTGGCATCTCTGTATTCG
1 GATTTGGCATCTCTGTATTGGCAGAGAACAGATCAAAGATGACAGATTTGGCATCTCTATATTCG
** * * ** *
47093256 GTAGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCATTTGTTTACGTTGAAGCAAATCTAAG
66 GCGGAGAGCAGATCGAAGACATAGTTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAG
*
47093321 ATGATTTGGCATCTCTGTATTGGCAGAGAGTAGATTGAAGATAACA
131 ATGATTTGGCATCTCTGTATTGGCAGAGAGTAGATCGAAGATAACA
*
47093367 GATTTGGCATCTCTGTATTGGTAGAGAACAGATCAAAGATGACAGATTTGGCATCTCTATATTCG
1 GATTTGGCATCTCTGTATTGGCAGAGAACAGATCAAAGATGACAGATTTGGCATCTCTATATTCG
* *
47093432 GCGGAGAGCAGATCAAAGACATAGTTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTATG
66 GCGGAGAGCAGATCGAAGACATAGTTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAG
*
47093497 ATGATTTGGCATCTCTGTATTGGCAGAGAGTAGATCGAAGATAGCA
131 ATGATTTGGCATCTCTGTATTGGCAGAGAGTAGATCGAAGATAACA
* *
47093543 GATATGGCATCTCTATATTGGCAGAGAACAGATCAAAGATGACAGATTTGGCATCTCTATATTCG
1 GATTTGGCATCTCTGTATTGGCAGAGAACAGATCAAAGATGACAGATTTGGCATCTCTATATTCG
47093608 GCGGAGAGCAGATCGAAGACATAGTTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAG
66 GCGGAGAGCAGATCGAAGACATAGTTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAG
*
47093673 ATGATTTGGCATCTCTGTATTGGCAGAGAGTAGATTGAAGATAACA
131 ATGATTTGGCATCTCTGTATTGGCAGAGAGTAGATCGAAGATAACA
*
47093719 GATTTGGCATCTCTGTATTGGTAGAGAACAGATCAAAGATGACAGATTTGGCATCTCTATATTCG
1 GATTTGGCATCTCTGTATTGGCAGAGAACAGATCAAAGATGACAGATTTGGCATCTCTATATTCG
*
47093784 GCGGAGAGCAGATCAAAGACATAGTTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAG
66 GCGGAGAGCAGATCGAAGACATAGTTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAG
*
47093849 ATGATTTGGCATCTCTGTATTGGCAGAGAGTAGATCGAAGATAGCA
131 ATGATTTGGCATCTCTGTATTGGCAGAGAGTAGATCGAAGATAACA
* *
47093895 GATTTGGCATCTCTATATTGGCAGAGAACAGATCAAAGATGACAGATTTGGCATCTCTGTATTCG
1 GATTTGGCATCTCTGTATTGGCAGAGAACAGATCAAAGATGACAGATTTGGCATCTCTATATTCG
* *
47093960 GCGAAGAGCAGATCGAAGACATAGCTGATTTGGC
66 GCGGAGAGCAGATCGAAGACATAGTTGATTTGGC
47093994 ATCTCTGTAT
Statistics
Matches: 591, Mismatches: 36, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
176 591 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (176 bp):
GATTTGGCATCTCTGTATTGGCAGAGAACAGATCAAAGATGACAGATTTGGCATCTCTATATTCG
GCGGAGAGCAGATCGAAGACATAGTTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAG
ATGATTTGGCATCTCTGTATTGGCAGAGAGTAGATCGAAGATAACA
Found at i:47094391 original size:26 final size:26
Alignment explanation
Indices: 47094346--47094396 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
47094336 TGGAGATAAC
**
47094346 AGATTTGACATCTCTGTATTAGACGT
1 AGATTTGACATCTCCATATTAGACGT
* *
47094372 AGATTTGGCATCTCCATATTCGACG
1 AGATTTGACATCTCCATATTAGACG
47094397 GGGAGCAGAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (26 bp):
AGATTTGACATCTCCATATTAGACGT
Done.