Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold71
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: 5741892
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.33
Warning! 121862 characters in sequence are not A, C, G, or T
File 6 of 33
Found at i:868301 original size:13 final size:13
Alignment explanation
Indices: 868283--868307 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
868273 ACACATAGTA
868283 TGTATCGATACAT
1 TGTATCGATACAT
868296 TGTATCGATACA
1 TGTATCGATACA
868308 CCATAAAATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:868304 original size:32 final size:33
Alignment explanation
Indices: 868263--868330 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
868253 GTAGCTAAAC
**
868263 TTGTATCGATACA-CATAGTATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
868295 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
868328 TTG
1 TTG
868331 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (33 bp):
TTGTATCGATACACCATAAAATGTATCGATACA
Found at i:869260 original size:51 final size:52
Alignment explanation
Indices: 869172--869269 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 52
869162 TTATTTCTAA
* * *
869172 AGGGATACTCCAACCCTAGTTTTATTTTCAAAATATT-AATTTTTCACTATC
1 AGGGATACTCCAACCCCAGTTTTATCTCCAAAATATTAAATTTTTCACTATC
* *
869223 AGGGATACTCCAACCCCATTTTTATCTCCAAACTATTAAATTTTTCA
1 AGGGATACTCCAACCCCAGTTTTATCTCCAAAATATTAAATTTTTCA
869270 TCAGGGAATG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
51 32 0.78
52 9 0.22
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.39
Consensus pattern (52 bp):
AGGGATACTCCAACCCCAGTTTTATCTCCAAAATATTAAATTTTTCACTATC
Found at i:872621 original size:13 final size:13
Alignment explanation
Indices: 872603--872627 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
872593 CATTTTGGGA
872603 TGTATCGATACAT
1 TGTATCGATACAT
872616 TGTATCGATACA
1 TGTATCGATACA
872628 ACTTGTGTGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:872625 original size:33 final size:32
Alignment explanation
Indices: 872583--872646 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
872573 TACAAGCCAA
**
872583 TGTATCGATACATTTTGGGATGTATCGATACAT
1 TGTATCGATACAACTTGGG-TGTATCGATACAT
*
872616 TGTATCGATACAACTTGTGTGTATCGATACA
1 TGTATCGATACAACTTGGGTGTATCGATACA
872647 AACAGTTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (32 bp):
TGTATCGATACAACTTGGGTGTATCGATACAT
Found at i:872785 original size:20 final size:19
Alignment explanation
Indices: 872762--872800 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
872752 CTGTGCATTA
872762 TGTATCGATACATTTGAAGG
1 TGTATCGATACATTT-AAGG
872782 TGTATCGATACATTTAAGG
1 TGTATCGATACATTTAAGG
872801 GTTTTGACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATTTAAGG
Found at i:874984 original size:165 final size:164
Alignment explanation
Indices: 874796--875150 Score: 394
Period size: 165 Copynumber: 2.2 Consensus size: 164
874786 TCACTATTTC
* * * *
874796 ATAAATTTTAAAATTCATCAAATATTATTATTTAATTCACATTACATCAATTTTAAAAAATTCCT
1 ATAATTTTTAAAATTCATCAAATATTATTATTTAATTCACAGTAAATCAATTTTAAAAAATTCAT
* * ** **** * *
874861 TT-CATTTCATGAGTTTTTTA-TTTTTCTTTAAAATTTTCCT-TTTTTTAAATATAGAGTTTTTT
66 TTAC-TTTCATAAGTTTTTCATTTTTTC-TTAAAATTCGCCTATTCCCAAAAAATAGAGTTTTCT
* * * *
874923 ACTTC-GTAAATGTTTTCGAGGGAATTTTTCTTTGGTTT
129 A-TTCAATAAATATTTTCGAGGG-ATTTTGC-TCGGTTT
* ** * *
874961 ATAATTTTTAAAATTCATCAAATATCATTATTTAATTCATGGTAAATCAATTTTGAAAAATTTAT
1 ATAATTTTTAAAATTCATCAAATATTATTATTTAATTCACAGTAAATCAATTTTAAAAAATTCAT
* *
875026 TTACTTTCTTAAGTTTTTCATTTTTTCTTAAAATTCGCCTATTCCCAAAAAATCGAGTTTTCTAT
66 TTACTTTCATAAGTTTTTCATTTTTTCTTAAAATTCGCCTATTCCCAAAAAATAGAGTTTTCTAT
875091 TCAATAAATATTTTCGAGGGATTTTGCTCGGTTT
131 TCAATAAATATTTTCGAGGGATTTTGCTCGGTTT
* *
875125 AAAATTTTTAAAATTCATCAACTATT
1 ATAATTTTTAAAATTCATCAAATATT
875151 GACATTAGAC
Statistics
Matches: 158, Mismatches: 28, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
164 29 0.18
165 91 0.58
166 38 0.24
ACGTcount: A:0.32, C:0.12, G:0.07, T:0.49
Consensus pattern (164 bp):
ATAATTTTTAAAATTCATCAAATATTATTATTTAATTCACAGTAAATCAATTTTAAAAAATTCAT
TTACTTTCATAAGTTTTTCATTTTTTCTTAAAATTCGCCTATTCCCAAAAAATAGAGTTTTCTAT
TCAATAAATATTTTCGAGGGATTTTGCTCGGTTT
Found at i:877436 original size:154 final size:154
Alignment explanation
Indices: 877097--877447 Score: 476
Period size: 155 Copynumber: 2.3 Consensus size: 154
877087 TTATTATCCA
*
877097 TTAGGGGTATCGGGCACTTCTAAGTCGAAGGTATCCCCTAAGAGCATTTTTATAATTTTCCAAAA
1 TTAGGGGTATC-GGCACTTCTAAGTCGAAGGTATCCCCTAAGAGCATTTTCATAATTTTCCAAAA
* *
877162 CCAAGTCCTAGGTTGTCACCGGCTCTACTTTTATGCTGAAGGTGGGTATTTAAGATAGGTTCATC
65 CCAAGTCCTAGGTTGTCACCGGCTCCACATTTATGCTGAAGGTGGGTATTTAAGATAGGTTCATC
*
877227 CCATCTATAATCTTTTTTAAGTCCT
130 CCATCTATAATCCTTTTTAAGTCCT
* * ** *
877252 TTAGGGGTATTCGGTACTTCTAAGTCGAAGGTATCCCCTAA-AGACATTTTCGTAATTTTTTAGA
1 TTAGGGGTA-TCGGCACTTCTAAGTCGAAGGTATCCCCTAAGAG-CATTTTCATAATTTTCCAAA
* * * * *
877316 ATCGAGTCTTAGGTTGTCACCAGG-TCCGCATTTATGCTGAA-GTGGGTATTTAGGATAGGTTCA
64 ACCAAGTCCTAGGTTGTCACC-GGCTCCACATTTATGCTGAAGGTGGGTATTTAAGATAGGTTCA
877379 TCCCATCTATAATCCTTTTTAAGTCCT
128 TCCCATCTATAATCCTTTTTAAGTCCT
* * *
877406 TTAGGGGTATCAAGCACTTCTAAGTTGAAGGTTTCCCC-AAGA
1 TTAGGGGTATC-GGCACTTCTAAGTCGAAGGTATCCCCTAAGA
877448 ATCCTAGGTT
Statistics
Matches: 173, Mismatches: 18, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
153 4 0.02
154 81 0.47
155 84 0.49
156 4 0.02
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (154 bp):
TTAGGGGTATCGGCACTTCTAAGTCGAAGGTATCCCCTAAGAGCATTTTCATAATTTTCCAAAAC
CAAGTCCTAGGTTGTCACCGGCTCCACATTTATGCTGAAGGTGGGTATTTAAGATAGGTTCATCC
CATCTATAATCCTTTTTAAGTCCT
Found at i:877552 original size:128 final size:128
Alignment explanation
Indices: 877325--877576 Score: 373
Period size: 128 Copynumber: 2.0 Consensus size: 128
877315 AATCGAGTCT
* *
877325 TAGGTTGTCACCAGGTCCGCATTTATGCTGAAGTGGGTATTTAGGATAGGTTCATCCCATCTATA
1 TAGGTTGTCACCAGGTCCACATTTATGCTGAAGTGGGTATTTAGGATAGGTTCACCCCATCTATA
* * * *
877390 ATCCTTTTTAAGTCCTTTAGGGGTATCAAGCACTTCTAAGTTGAAGGT-TTCCCCAAGAATCC
66 ATCCTTTTTAAGTCCTTTAAGGGCATCAAGCACTTCTAAGTCGAAAGTATTCCCCAAGAATCC
*
877452 TAGGTTGTCACCAGGTCCACTTTTATG-TCGAATGTGGGTATTTAGGATAGGTTCACCCCATCTA
1 TAGGTTGTCACCAGGTCCACATTTATGCT-GAA-GTGGGTATTTAGGATAGGTTCACCCCATCTA
** * *
877516 TAATCCTTTTTTTGTCCTTTAAGGGCATCGAGCACTTCTAAGTCGAAAGTATTCCCTAAGA
64 TAATCCTTTTTAAGTCCTTTAAGGGCATCAAGCACTTCTAAGTCGAAAGTATTCCCCAAGA
877577 GCATTTTCAT
Statistics
Matches: 111, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
126 1 0.01
127 28 0.25
128 73 0.66
129 9 0.08
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.35
Consensus pattern (128 bp):
TAGGTTGTCACCAGGTCCACATTTATGCTGAAGTGGGTATTTAGGATAGGTTCACCCCATCTATA
ATCCTTTTTAAGTCCTTTAAGGGCATCAAGCACTTCTAAGTCGAAAGTATTCCCCAAGAATCC
Found at i:879003 original size:21 final size:20
Alignment explanation
Indices: 878977--879015 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
878967 AGATCAAAAC
878977 CCTAGAAAGTATCGATACACA
1 CCTAG-AAGTATCGATACACA
*
878998 CCTAGATGTATCGATACA
1 CCTAGAAGTATCGATACA
879016 TATTGCTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (20 bp):
CCTAGAAGTATCGATACACA
Found at i:879665 original size:36 final size:33
Alignment explanation
Indices: 879619--879711 Score: 118
Period size: 32 Copynumber: 2.8 Consensus size: 33
879609 CTAAATGATT
879619 GAGAGATTCTATCTTAGCCTTTGAAAAAGATAAG
1 GAGAGATTCTATCTTAGCC-TTGAAAAAGATAAG
*
879653 GAGAGAGGTTCTATCTTAGCCCGTG-AAAAGATAAG
1 GAGAGA--TTCTATCTTAG-CCTTGAAAAAGATAAG
*
879688 GAG-GTTTCTATCTTAGCCTTGAAA
1 GAGAGATTCTATCTTAGCCTTGAAA
879712 GATAGTGTTG
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
31 4 0.08
32 13 0.25
34 7 0.13
35 13 0.25
36 13 0.25
37 2 0.04
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (33 bp):
GAGAGATTCTATCTTAGCCTTGAAAAAGATAAG
Found at i:879702 original size:32 final size:36
Alignment explanation
Indices: 879619--879705 Score: 110
Period size: 36 Copynumber: 2.5 Consensus size: 36
879609 CTAAATGATT
* **
879619 GAGAGATTCTATCTTAGCCTTTGAAAAAGATAAGGA
1 GAGAGGTTCTATCTTAGCCCGTGAAAAAGATAAGGA
879655 GAGAGGTTCTATCTTAGCCCGTG-AAAAGATAA-G-
1 GAGAGGTTCTATCTTAGCCCGTGAAAAAGATAAGGA
*
879688 GAG-GTTTCTATCTTAGCC
1 GAGAGGTTCTATCTTAGCC
879706 TTGAAAGATA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
32 14 0.30
33 3 0.06
34 1 0.02
35 9 0.19
36 20 0.43
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (36 bp):
GAGAGGTTCTATCTTAGCCCGTGAAAAAGATAAGGA
Found at i:881308 original size:21 final size:21
Alignment explanation
Indices: 881284--881327 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
881274 TAATATTCTT
*
881284 GAAAAGAA-ATTAAGTGAATTA
1 GAAAAGAAGA-TAAATGAATTA
881305 GAAAAGAAGATAAATGAATTA
1 GAAAAGAAGATAAATGAATTA
881326 GA
1 GA
881328 GGAGAAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.59, C:0.00, G:0.20, T:0.20
Consensus pattern (21 bp):
GAAAAGAAGATAAATGAATTA
Found at i:884953 original size:13 final size:13
Alignment explanation
Indices: 884935--884959 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
884925 ATAATAACCC
884935 ATGTATCGATACA
1 ATGTATCGATACA
884948 ATGTATCGATAC
1 ATGTATCGATAC
884960 TAGGAATATT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:891237 original size:13 final size:13
Alignment explanation
Indices: 891219--891245 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
891209 ACAATTGTCC
891219 ATGTATCGATACA
1 ATGTATCGATACA
891232 ATGTATCGATACA
1 ATGTATCGATACA
891245 A
1 A
891246 AGCATAATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:894959 original size:20 final size:20
Alignment explanation
Indices: 894916--894959 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
894906 TTCAAATGCA
* *
894916 TGTATCGATACATTATGAGT
1 TGTATCGATACATTAGGAGG
894936 TGTATCGATACA-TAGGAGCG
1 TGTATCGATACATTAGGAG-G
894956 TGTA
1 TGTA
894960 AGTGTGGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (20 bp):
TGTATCGATACATTAGGAGG
Found at i:895360 original size:36 final size:32
Alignment explanation
Indices: 895315--895407 Score: 109
Period size: 36 Copynumber: 2.8 Consensus size: 32
895305 CTAAGTGATT
895315 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGGGA
1 GAGAGGTTCTATCTTAGCC-TTGAAAAAGAT---GA
*
895351 GAGAGGTTCTATCTTAGCCCGTG-AAAAGATGA
1 GAGAGGTTCTATCTTAG-CCTTGAAAAAGATGA
895383 G-GAGGTTTCTATCTTAGCCTTGAAA
1 GAGAGG-TTCTATCTTAGCCTTGAAA
895408 GATAGTGTTG
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
31 8 0.15
32 16 0.31
35 7 0.13
36 19 0.37
37 2 0.04
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (32 bp):
GAGAGGTTCTATCTTAGCCTTGAAAAAGATGA
Found at i:896273 original size:35 final size:35
Alignment explanation
Indices: 896226--896425 Score: 247
Period size: 35 Copynumber: 5.7 Consensus size: 35
896216 TCTTACCAAA
* *
896226 CAAACTTTTTTCATCATCGTTTGGCTGCATTTGGT
1 CAAACTCTTTTCATCATCGTTTGGCTACATTTGGT
* * *
896261 CAAACTCCTTTCATCATCGTTTGGCTATATATGGT
1 CAAACTCTTTTCATCATCGTTTGGCTACATTTGGT
* *
896296 CAAACTCTTTTCATCATCGTTGGGCTACATTTGAT
1 CAAACTCTTTTCATCATCGTTTGGCTACATTTGGT
** *
896331 CAAACTCTTTTCATCATCGTTTGGCTGTATCTGGT
1 CAAACTCTTTTCATCATCGTTTGGCTACATTTGGT
* * * * * *
896366 AAAACTCTTTTCATCATCATTTGGCCATATATAGT
1 CAAACTCTTTTCATCATCGTTTGGCTACATTTGGT
*
896401 CAAACTCTTTTCATCATCATTTGGC
1 CAAACTCTTTTCATCATCGTTTGGC
896426 CATATCTAGT
Statistics
Matches: 143, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 143 1.00
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.41
Consensus pattern (35 bp):
CAAACTCTTTTCATCATCGTTTGGCTACATTTGGT
Found at i:896343 original size:70 final size:70
Alignment explanation
Indices: 896226--896449 Score: 281
Period size: 70 Copynumber: 3.2 Consensus size: 70
896216 TCTTACCAAA
* * * *
896226 CAAACTTTTTTCATCATCGTTTGGCTGCATTTGGTCAAACTCCTTTCATCATCGTTTGGCTATAT
1 CAAACTCTTTTCATCATCGTTTGGCTACATTTGATCAAACTCTTTTCATCATCGTTTGGCTATAT
*
896291 ATGGT
66 CTGGT
* *
896296 CAAACTCTTTTCATCATCGTTGGGCTACATTTGATCAAACTCTTTTCATCATCGTTTGGCTGTAT
1 CAAACTCTTTTCATCATCGTTTGGCTACATTTGATCAAACTCTTTTCATCATCGTTTGGCTATAT
896361 CTGGT
66 CTGGT
* * * * * * *
896366 AAAACTCTTTTCATCATCATTTGGCCATATAT-AGTCAAACTCTTTTCATCATCATTTGGCCATA
1 CAAACTCTTTTCATCATCGTTTGGCTACATTTGA-TCAAACTCTTTTCATCATCGTTTGGCTATA
*
896430 TCTAGT
65 TCTGGT
896436 CAAACAT-TTTTCAT
1 CAAAC-TCTTTTCAT
896450 TCTCATTTGA
Statistics
Matches: 134, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
69 1 0.01
70 132 0.99
71 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.42
Consensus pattern (70 bp):
CAAACTCTTTTCATCATCGTTTGGCTACATTTGATCAAACTCTTTTCATCATCGTTTGGCTATAT
CTGGT
Found at i:896408 original size:105 final size:105
Alignment explanation
Indices: 896226--896418 Score: 314
Period size: 105 Copynumber: 1.8 Consensus size: 105
896216 TCTTACCAAA
* * * * *
896226 CAAACTTTTTTCATCATCGTTTGGCTGCATTTGGTCAAACTCCTTTCATCATCGTTTGGCTATAT
1 CAAACTCTTTTCATCATCGTTTGGCTGCATCTGGTAAAACTCCTTTCATCATCATTTGGCCATAT
*
896291 ATGGTCAAACTCTTTTCATCATCGTTGGGCTACATTTGAT
66 ATAGTCAAACTCTTTTCATCATCGTTGGGCTACATTTGAT
* *
896331 CAAACTCTTTTCATCATCGTTTGGCTGTATCTGGTAAAACTCTTTTCATCATCATTTGGCCATAT
1 CAAACTCTTTTCATCATCGTTTGGCTGCATCTGGTAAAACTCCTTTCATCATCATTTGGCCATAT
896396 ATAGTCAAACTCTTTTCATCATC
66 ATAGTCAAACTCTTTTCATCATC
896419 ATTTGGCCAT
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
105 80 1.00
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.41
Consensus pattern (105 bp):
CAAACTCTTTTCATCATCGTTTGGCTGCATCTGGTAAAACTCCTTTCATCATCATTTGGCCATAT
ATAGTCAAACTCTTTTCATCATCGTTGGGCTACATTTGAT
Found at i:896426 original size:35 final size:34
Alignment explanation
Indices: 896226--896449 Score: 238
Period size: 35 Copynumber: 6.4 Consensus size: 34
896216 TCTTACCAAA
*
896226 CAAACTTTTTTCATCATCGTTTGGCTGCAT-TTGGT
1 CAAACTCTTTTCATCATCGTTTGGC--CATATTGGT
* *
896261 CAAACTCCTTTCATCATCGTTTGGCTATATATGGT
1 CAAACTCTTTTCATCATCGTTTGGCCATAT-TGGT
* *
896296 CAAACTCTTTTCATCATCGTTGGGCTACAT-TTGAT
1 CAAACTCTTTTCATCATCGTTTGGC--CATATTGGT
**
896331 CAAACTCTTTTCATCATCGTTTGGCTGTATCTGGT
1 CAAACTCTTTTCATCATCGTTTGGCCATAT-TGGT
* * *
896366 AAAACTCTTTTCATCATCATTTGGCCATATATAGT
1 CAAACTCTTTTCATCATCGTTTGGCCATAT-TGGT
* *
896401 CAAACTCTTTTCATCATCATTTGGCCATATCTAGT
1 CAAACTCTTTTCATCATCGTTTGGCCATAT-TGGT
896436 CAAACAT-TTTTCAT
1 CAAAC-TCTTTTCAT
896450 TCTCATTTGA
Statistics
Matches: 163, Mismatches: 19, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
33 3 0.02
34 2 0.01
35 154 0.94
36 2 0.01
37 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.42
Consensus pattern (34 bp):
CAAACTCTTTTCATCATCGTTTGGCCATATTGGT
Found at i:896439 original size:105 final size:104
Alignment explanation
Indices: 896226--896466 Score: 297
Period size: 105 Copynumber: 2.3 Consensus size: 104
896216 TCTTACCAAA
* * * * *
896226 CAAACTTTTTTCATCATCGTTTGGCTGCATTTGGTCAAACTCCTTTCATCATCGTTTGGCTATAT
1 CAAAC-TTTTTCATCATCGTTTGGCTGTATCTGGTAAAACTCCTTTCATCATCATTTGGCCATAT
* * * *
896291 ATGGTCAAACTCTTTTCATCATCGTTGGGCTACATTTGAT
65 ATAGTCAAACTCTTTTCATCATCATTGGGCCACATTAGAT
*
896331 CAAACTCTTTTCATCATCGTTTGGCTGTATCTGGTAAAACTCTTTTCATCATCATTTGGCCATAT
1 CAAACT-TTTTCATCATCGTTTGGCTGTATCTGGTAAAACTCCTTTCATCATCATTTGGCCATAT
* *
896396 ATAGTCAAACTCTTTTCATCATCATTTGGCCATATCTAG-T
65 ATAGTCAAACTCTTTTCATCATCATTGGGCCACAT-TAGAT
* *
896436 CAAACATTTTTCATTC-TCATTTGACTGTATC
1 CAAAC-TTTTTCA-TCATCGTTTGGCTGTATC
896467 GGTTATCACC
Statistics
Matches: 118, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
104 1 0.01
105 112 0.95
106 5 0.04
ACGTcount: A:0.23, C:0.22, G:0.12, T:0.42
Consensus pattern (104 bp):
CAAACTTTTTCATCATCGTTTGGCTGTATCTGGTAAAACTCCTTTCATCATCATTTGGCCATATA
TAGTCAAACTCTTTTCATCATCATTGGGCCACATTAGAT
Found at i:896502 original size:46 final size:46
Alignment explanation
Indices: 896434--896544 Score: 150
Period size: 46 Copynumber: 2.4 Consensus size: 46
896424 GCCATATCTA
** *
896434 GTCAAACATTTTTCATTCTCATTTGACTGTATCGGTTATCACCCTG
1 GTCAAACCCTTTTCATTCTCATTTGACTGTATCGGTTACCACCCTG
* * * **
896480 GTCAAACCCTTTTCATTTTCATTTGATTGTATTGGTTACCACTTTG
1 GTCAAACCCTTTTCATTCTCATTTGACTGTATCGGTTACCACCCTG
896526 GTCAAACCCTTTTCATTCT
1 GTCAAACCCTTTTCATTCT
896545 TGATTGACCT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 56 1.00
ACGTcount: A:0.21, C:0.23, G:0.12, T:0.44
Consensus pattern (46 bp):
GTCAAACCCTTTTCATTCTCATTTGACTGTATCGGTTACCACCCTG
Found at i:898399 original size:10 final size:10
Alignment explanation
Indices: 898370--898398 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
898360 ATTTTTAAAA
898370 ATTTAATTTT
1 ATTTAATTTT
898380 ATTTAATTTT
1 ATTTAATTTT
898390 ATTT-ATTTT
1 ATTTAATTTT
898399 TTCTAACTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.26
10 14 0.74
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
ATTTAATTTT
Found at i:900431 original size:154 final size:155
Alignment explanation
Indices: 900083--900585 Score: 595
Period size: 154 Copynumber: 3.3 Consensus size: 155
900073 CAATTTTAGT
* * * *
900083 GTCCATTAGGGGTATC-AGGCACTTCTAAGTCGAAGGTATCCCCTAAGGACATCTTCATAATTTT
1 GTCCTTTAGGGGTATCTA-GCACTTCTAAGTCGAAGGTATCTCCTAAGGGCATTTTCATAATTTT
* * * * *
900147 TCAGAACCAAGTCCTAGGTTGTCGCCGAGTCCGCTTTTATGTCGAAAGTGGGTATTTAGGATAGG
65 TTAGAACCGAGTCCTAGGTTGTCACTGAGTCTGCTTTTATGTCGAAAGTGGGTATTTAGGATAGG
* *
900212 TTAATCCCATCTATAATCCTTTTAAA
130 TTCATCCCATCTATAATCCTTTTTAA
* * * *
900238 GCCCTTTAGGGGTATCAAGCA-TATCTAAGTCGAACGTATCTCGTAAGGGCATTTTCATAATTTT
1 GTCCTTTAGGGGTATCTAGCACT-TCTAAGTCGAAGGTATCTCCTAAGGGCATTTTCATAATTTT
* * * * *
900302 TTAGAACCGAGTCTTAGGTTGTCACTAAGTCTGCTTTTATGCCGAAGGT-GATATTTAGGATAGG
65 TTAGAACCGAGTCCTAGGTTGTCACTGAGTCTGCTTTTATGTCGAAAGTGGGTATTTAGGATAGG
*
900366 TTCATCACATCTATAATCCTTTTTAA
130 TTCATCCCATCTATAATCCTTTTTAA
* * * * *
900392 GTCCTTTAGGAGTATCTAGCATTTCTAAGTCGAAGGTATCTCTTAAAGGCATTTTTATAATTTTT
1 GTCCTTTAGGGGTATCTAGCACTTCTAAGTCGAAGGTATCTCCTAAGGGCATTTTCATAATTTTT
* * * * * * *
900457 TAGAATCGAGCCCTAAGTTATCA-TCGGGTTTGCTTTTATGTCGAAAATGGGTATTTAGGAT-GG
66 TAGAACCGAGTCCTAGGTTGTCACT-GAGTCTGCTTTTATGTCGAAAGTGGGTATTTAGGATAGG
*
900520 TTCATCCCATCTATAATCATTTTTAA
130 TTCATCCCATCTATAATCCTTTTTAA
* * *
900546 GTCCTTTAGGGATAT-TGGGCACTTCTAAGTCAAAGGTATC
1 GTCCTTTAGGGGTATCT-AGCACTTCTAAGTCGAAGGTATC
900586 CCTTAGAGTC
Statistics
Matches: 296, Mismatches: 46, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
153 2 0.01
154 188 0.64
155 105 0.35
156 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (155 bp):
GTCCTTTAGGGGTATCTAGCACTTCTAAGTCGAAGGTATCTCCTAAGGGCATTTTCATAATTTTT
TAGAACCGAGTCCTAGGTTGTCACTGAGTCTGCTTTTATGTCGAAAGTGGGTATTTAGGATAGGT
TCATCCCATCTATAATCCTTTTTAA
Found at i:904274 original size:166 final size:161
Alignment explanation
Indices: 903811--904314 Score: 641
Period size: 166 Copynumber: 3.1 Consensus size: 161
903801 ATATTTGAAT
* *
903811 TTTTTTCCTTGAAATTTTTTTTTCTAAAATACGTTATTTTCTACCTCGTAATTTTTTTCGGGAGG
1 TTTTTTCCTTGAAATTTTTTTTT-T-AAATACGTTGTTTTCTACTTCGTAATTTTTTTC-GGAGG
**
903876 ATTTTTCTTGGTTTTTAATTTTTTAAATTCATCAAATATTATTATTTATTTTATACCAAATTATT
63 ATTTTTCTTGGTTTTTAA-TTTTTAAATTCATCAAATATTATTATTTATTTTATATTAAATTATT
* *
903941 TTTCAAAAATTAATTTATTTTCATAAGTTTTTGAAT
127 TTTCAAAAATTAATTCATTTTCATAAGTTTTT-AAA
* * *
903977 TTTTTTCC-CG--A---TTTTTTTAAATACG-TGTTTTTCTGCTTCGTAATTTTTTTCGGGGGTA
1 TTTTTTCCTTGAAATTTTTTTTTTAAATACGTTG-TTTTCTACTTCGTAATTTTTTTCGGAGG-A
*
904035 TTTTTCTTGGTTTTTAATTTTTAAATTCATAAAATATTATTATTTATTTTATATTAAATTAGTTT
64 TTTTTCTTGGTTTTTAATTTTTAAATTCATCAAATATTATTATTTATTTTATATTAAATTA-TTT
*
904100 TT-AAAAATTAATTCATTTTCATGAGTTTTTAAA
128 TTCAAAAATTAATTCATTTTCATAAGTTTTTAAA
* *
904133 TTTTTTCCTTGAAATTCTCCTTTTTTTGAAATATGTTGTTTTCTACTTCGCAATTTTTTT-GAGA
1 TTTTTTCCTTGAAATT-T--TTTTTTT-AAATACGTTGTTTTCTACTTCGTAATTTTTTTCG-GA
* * *
904197 GGATTTTTCTTGGTTTTTAATTTTTAAAATTTATCAAATATCATTATTTATTTCATATTAAATTA
61 GGATTTTTCTTGGTTTTTAATTTTT-AAATTCATCAAATATTATTATTTATTTTATATTAAATTA
* *
904262 TTTTTCAAAAATTAAATCATTTTCATAAGTTTTTGAA
125 TTTTTCAAAAATTAATTCATTTTCATAAGTTTTTAAA
*
904299 -TTTTTCCTTAAAATTT
1 TTTTTTCCTTGAAATTT
904315 CACTTTTTTT
Statistics
Matches: 297, Mismatches: 24, Indels: 36
0.83 0.07 0.10
Matches are distributed among these distances:
156 10 0.03
157 73 0.25
158 51 0.17
159 2 0.01
160 6 0.02
163 1 0.00
164 1 0.00
165 51 0.17
166 100 0.34
167 2 0.01
ACGTcount: A:0.27, C:0.09, G:0.08, T:0.56
Consensus pattern (161 bp):
TTTTTTCCTTGAAATTTTTTTTTTAAATACGTTGTTTTCTACTTCGTAATTTTTTTCGGAGGATT
TTTCTTGGTTTTTAATTTTTAAATTCATCAAATATTATTATTTATTTTATATTAAATTATTTTTC
AAAAATTAATTCATTTTCATAAGTTTTTAAA
Found at i:904985 original size:11 final size:11
Alignment explanation
Indices: 904954--904986 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
904944 GGCAACAAGT
*
904954 GAAAAAAAAAA
1 GAAAAAAAAGA
904965 GAAAAAAAAGA
1 GAAAAAAAAGA
904976 GAAAAAAAAGA
1 GAAAAAAAAGA
904987 AAATTCCGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
GAAAAAAAAGA
Found at i:906122 original size:140 final size:141
Alignment explanation
Indices: 905957--906274 Score: 480
Period size: 141 Copynumber: 2.3 Consensus size: 141
905947 AAAGATTTCG
*
905957 AAACTTCTCATATCTTTTCGGGCTTCCATTAAGGTATAAGATAAACTTTAAAATCGATAATAATA
1 AAACTTCTCATATCTTTTCGGGCTTCCATTAAGGTACAAGATAAACTTTAAAATCGATAATAATA
* * *
906022 ATAAA-TTTTTTTTTATGTTAGTAATTAAGGATTTCAATGTT-CCTATGGGCATCCGCATTGG-T
66 ATAAAGATTTTTTTTACGTTAGTAATTAAGGATTTCAATGTTCCCT-TGGGCATCCGCA-GGGAT
*
906084 AATAAAATCTTAA
129 AATAAAATCCTAA
* *
906097 AAACTTCTCGTATCTTTTCGGGCTTCCATTAAGGTACAAGATAAATTTTAAAATCGATAATAATA
1 AAACTTCTCATATCTTTTCGGGCTTCCATTAAGGTACAAGATAAACTTTAAAATCGATAATAATA
* * *
906162 ATAAAGATTTTTTTTACGTTAGTAATTAAGGATTTTAATGTTCCCTTGGGCATCCGTAGGGATAT
66 ATAAAGATTTTTTTTACGTTAGTAATTAAGGATTTCAATGTTCCCTTGGGCATCCGCAGGGATAA
906227 TAAAATCCTAA
131 TAAAATCCTAA
* * *
906238 AGACTTTTCATATCTTTTCGGGCTTCCATTGAGGTAC
1 AAACTTCTCATATCTTTTCGGGCTTCCATTAAGGTAC
906275 GAATGATTTC
Statistics
Matches: 161, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
140 69 0.43
141 89 0.55
142 3 0.02
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (141 bp):
AAACTTCTCATATCTTTTCGGGCTTCCATTAAGGTACAAGATAAACTTTAAAATCGATAATAATA
ATAAAGATTTTTTTTACGTTAGTAATTAAGGATTTCAATGTTCCCTTGGGCATCCGCAGGGATAA
TAAAATCCTAA
Found at i:906928 original size:156 final size:155
Alignment explanation
Indices: 906448--907134 Score: 742
Period size: 156 Copynumber: 4.4 Consensus size: 155
906438 GCATTATCCC
* * * *
906448 AAGTCCTTTAGAGGTA-CTAGGTACTTTTACGTCAAAGGTATCCCCTAAGGGTATTTTCGTAATT
1 AAGTCCTTTAGGGGTATC-AGGTACTTTTACGTCGAAGGTATCCCCTAGGGGCATTTTCGTAATT
* * * * *
906512 TTTTAGAACCGAGTCCTAGGTTGTCACCGGGTCTACTTTTATACCGAAGGTAGATATTTAAGATA
65 TTTTAGAACTGAGTCCTAGGTTGTCACCGGGTCCACTTTTATGCCAAAGGTAGATATTTAGGATA
* *
906577 GATTCATCTCATCTATTATCCTTTTT
130 GGTTCATCTCATCTATTAACCTTTTT
* * * * * *
906603 AAGTCTTTTAGGGGTA-C-GGCTACTTTTACGTCGAAGGCATTCTCTAGGGACATTTTCATAATT
1 AAGTCCTTTAGGGGTATCAGG-TACTTTTACGTCGAAGGTATCCCCTAGGGGCATTTTCGTAATT
* ** * ** **
906666 TTTTAGAA-TCGAGTCCTAGGTTGTTACTAGATCTTCTTTTATGCTGAAGGTAGATATTTAGGAT
65 TTTTAGAACT-GAGTCCTAGGTTGTCACCGGGTCCACTTTTATGCCAAAGGTAGATATTTAGGAT
* *
906730 AAGTTCATCTCATCTATTATA-CTTCTT
129 AGGTTCATCTCATCTATTA-ACCTTTTT
* * * ** * *
906757 AAGTCATTTAAGGGTATCAGGTACTTTTACGTTGAAGGTATCCTTTAGGGGTATTTTTGTAATTT
1 AAGTCCTTTAGGGGTATCAGGTACTTTTACGTCGAAGGTATCCCCTAGGGGCATTTTCGTAATTT
* * * *
906822 TTTAGAACTAAGTCCTAGGTTGTCATCGGGTCCGCTTTTTATGCCAAAGGTTGATATTTAGGATA
66 TTTAGAACTGAGTCCTAGGTTGTCACCGGGTCCAC-TTTTATGCCAAAGGTAGATATTTAGGATA
906887 GGTTCATCTCATCTATTAACCTTTTT
130 GGTTCATCTCATCTATTAACCTTTTT
* * * *
906913 AAGTCCTTTAGGGGTATCGGGTACTTTTACGTCGAAGGTATCCCCTATGAGCATTTTCGAAATTT
1 AAGTCCTTTAGGGGTATCAGGTACTTTTACGTCGAAGGTATCCCCTAGGGGCATTTTCGTAATTT
* * *** * * * * *
906978 TCTAACAAAACTGAGTCCTAGGTAACCGCCGGGTCCACTTTTATGGCAAAGGTGGGTAGTTAGGA
66 T-T--TAGAACTGAGTCCTAGGTTGTCACCGGGTCCACTTTTATGCCAAAGGTAGATATTTAGGA
*
907043 TAGGTTCATC-CAT-T-TCAAACCTTTTT
128 TAGGTTCATCTCATCTAT-TAACCTTTTT
* *
907069 AAGTCCTTTAGGGGTATCAGGTACTTTTACGTCGAAGGTATCCCCTATGAGCATTTTCGTAATTT
1 AAGTCCTTTAGGGGTATCAGGTACTTTTACGTCGAAGGTATCCCCTAGGGGCATTTTCGTAATTT
907134 T
66 T
907135 CCTACAAAAC
Statistics
Matches: 447, Mismatches: 73, Indels: 23
0.82 0.13 0.04
Matches are distributed among these distances:
153 2 0.00
154 125 0.28
155 79 0.18
156 180 0.40
157 4 0.01
158 33 0.07
159 24 0.05
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (155 bp):
AAGTCCTTTAGGGGTATCAGGTACTTTTACGTCGAAGGTATCCCCTAGGGGCATTTTCGTAATTT
TTTAGAACTGAGTCCTAGGTTGTCACCGGGTCCACTTTTATGCCAAAGGTAGATATTTAGGATAG
GTTCATCTCATCTATTAACCTTTTT
Found at i:907188 original size:156 final size:157
Alignment explanation
Indices: 906723--907209 Score: 472
Period size: 156 Copynumber: 3.1 Consensus size: 157
906713 AGGTAGATAT
* * * * *
906723 TTAGGATAAGTTCATCTCATCTATTATA-CTTCTTAAGTCATTTAAGGGTATCAGGTACTTTTAC
1 TTAGGATAGGTTCATCTCATCTA-TAAACCTTTTTAAGTCCTTTAGGGGTATCAGGTACTTTTAC
* ** * * * * * * * * *** **
906787 GTTGAAGGTATCCTTTAGGGGTATTTTTGTAATTTT-T--TAGAACTAAGTCCTAGGTTGTCATC
65 GTCGAAGGTATCCCCTATGAGCATTTTCGAAATTTTCTAACAAAACTAAATCCTAGGTAACCGCC
* * * * *
906849 GGGTCCGCTTTTTAT-GCCAAAGGTTGATA
130 GGATCCAC-TTTCATCG-CAAAGGTGGGTA
* *
906878 TTTAGGATAGGTTCATCTCATCTATTAACCTTTTTAAGTCCTTTAGGGGTATCGGGTACTTTTAC
1 -TTAGGATAGGTTCATCTCATCTATAAACCTTTTTAAGTCCTTTAGGGGTATCAGGTACTTTTAC
* *
906943 GTCGAAGGTATCCCCTATGAGCATTTTCGAAATTTTCTAACAAAACTGAGTCCTAGGTAACCGCC
65 GTCGAAGGTATCCCCTATGAGCATTTTCGAAATTTTCTAACAAAACTAAATCCTAGGTAACCGCC
* * *
907008 GGGTCCACTTTTATGGCAAAGGTGGGTA
130 GGATCCACTTTCATCGCAAAGGTGGGTA
907036 GTTAGGATAGGTTCATC-CAT-T-TCAAACCTTTTTAAGTCCTTTAGGGGTATCAGGTACTTTTA
1 -TTAGGATAGGTTCATCTCATCTAT-AAACCTTTTTAAGTCCTTTAGGGGTATCAGGTACTTTTA
*
907098 CGTCGAAGGTATCCCCTATGAGCATTTTCGTAATTTTCCT-ACAAAACTAAATCCTAGGTAACCG
64 CGTCGAAGGTATCCCCTATGAGCATTTTCGAAATTTT-CTAACAAAACTAAATCCTAGGTAACCG
* * *
907162 CCGGATCCGCTTTCA-CGCTGAGGGTGGGTA
128 CCGGATCCACTTTCATCGC-AAAGGTGGGTA
* *
907192 TTAAGAATAAGTTCATCT
1 TT-AGGATAGGTTCATCT
907210 TTTTTTAAAA
Statistics
Matches: 281, Mismatches: 40, Indels: 19
0.83 0.12 0.06
Matches are distributed among these distances:
155 7 0.02
156 211 0.75
157 6 0.02
158 32 0.11
159 25 0.09
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (157 bp):
TTAGGATAGGTTCATCTCATCTATAAACCTTTTTAAGTCCTTTAGGGGTATCAGGTACTTTTACG
TCGAAGGTATCCCCTATGAGCATTTTCGAAATTTTCTAACAAAACTAAATCCTAGGTAACCGCCG
GATCCACTTTCATCGCAAAGGTGGGTA
Found at i:913357 original size:17 final size:17
Alignment explanation
Indices: 913331--913383 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 17
913321 TTATCTAATT
*
913331 TTATAATTATTAGATAA
1 TTATATTTATTAGATAA
*
913348 TTATATTTATTATATGAA
1 TTATATTTATTAGAT-AA
913366 -TATTATTTATTAAGATAA
1 TTA-TATTTATT-AGATAA
913384 ATGTGGAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 15 0.50
18 12 0.40
19 3 0.10
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (17 bp):
TTATATTTATTAGATAA
Found at i:914558 original size:17 final size:16
Alignment explanation
Indices: 914460--914587 Score: 66
Period size: 17 Copynumber: 7.7 Consensus size: 16
914450 TTCACAAATG
914460 TTCAT-AATTT-ATAA
1 TTCATGAATTTCATAA
* * *
914474 TACATGGATATCCATAA
1 TTCATGAAT-TTCATAA
*
914491 TACATGAATGCTT-ATAA
1 TTCATGAAT--TTCATAA
* *
914508 TTCATGAATCTTTATGA
1 TTCATGAAT-TTCATAA
*
914525 TAT-ATGAATGTTAATAA
1 T-TCATGAAT-TTCATAA
914542 TTCATGAATTTCCATAA
1 TTCATGAATTT-CATAA
* *
914559 TACATGATGATTTTATAA
1 TTCATGA--ATTTCATAA
914577 TTCATGAATTT
1 TTCATGAATTT
914588 TCAAAATAAA
Statistics
Matches: 89, Mismatches: 15, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
14 4 0.04
15 2 0.02
16 11 0.12
17 56 0.63
18 12 0.13
19 4 0.04
ACGTcount: A:0.38, C:0.10, G:0.09, T:0.42
Consensus pattern (16 bp):
TTCATGAATTTCATAA
Found at i:915821 original size:9 final size:9
Alignment explanation
Indices: 915807--915843 Score: 56
Period size: 9 Copynumber: 3.9 Consensus size: 9
915797 GAAAGAAAGT
915807 GAAAAAAAA
1 GAAAAAAAA
915816 GAAAAAAAA
1 GAAAAAAAA
915825 GAAAGAAAAA
1 GAAA-AAAAA
915835 GAGAAAAAA
1 GA-AAAAAA
915844 TTTACGTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 13 0.50
10 11 0.42
11 2 0.08
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (9 bp):
GAAAAAAAA
Found at i:915833 original size:19 final size:19
Alignment explanation
Indices: 915807--915843 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
915797 GAAAGAAAGT
915807 GAAAAAAAAGA-AAAAAAA
1 GAAAAAAAAGAGAAAAAAA
915825 GAAAGAAAAAGAGAAAAAA
1 GAAA-AAAAAGAGAAAAAA
915844 TTTACGTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 7 0.41
20 6 0.35
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (19 bp):
GAAAAAAAAGAGAAAAAAA
Found at i:916405 original size:21 final size:21
Alignment explanation
Indices: 916367--916406 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
916357 TGTCATATTC
*
916367 ATTTTTTATATTAGGTTTTAA
1 ATTTTTTATATCAGGTTTTAA
* *
916388 ATTTTTTATGTCATGTTTT
1 ATTTTTTATATCAGGTTTT
916407 TATTTTTCGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.03, G:0.10, T:0.65
Consensus pattern (21 bp):
ATTTTTTATATCAGGTTTTAA
Found at i:916643 original size:16 final size:17
Alignment explanation
Indices: 916619--916651 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
916609 ATTTTTATTA
*
916619 AAAATAATTACAAATAT
1 AAAATAATTAAAAATAT
916636 AAAA-AATTAAAAATAT
1 AAAATAATTAAAAATAT
916652 CATTAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAATAATTAAAAATAT
Found at i:919910 original size:13 final size:13
Alignment explanation
Indices: 919892--919917 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
919882 CAAAGTATTT
919892 GTTTAACATTTAA
1 GTTTAACATTTAA
919905 GTTTAACATTTAA
1 GTTTAACATTTAA
919918 TGCAGATCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
GTTTAACATTTAA
Found at i:924675 original size:12 final size:13
Alignment explanation
Indices: 924651--924680 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
924641 AATAGGTTCT
924651 AAATAAAATTATA
1 AAATAAAATTATA
924664 AAATAAAA-TATA
1 AAATAAAATTATA
924676 AAATA
1 AAATA
924681 TGAATATCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
AAATAAAATTATA
Found at i:924786 original size:21 final size:22
Alignment explanation
Indices: 924740--924787 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
924730 TTTATTTTTT
* *
924740 TAAAAAAATTTATTCACTTTCA
1 TAAAAAAATTTAATCACTTTAA
*
924762 -AAAAAAATTTAATCGC-TTAA
1 TAAAAAAATTTAATCACTTTAA
924782 TAAAAA
1 TAAAAA
924788 CTACAATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.33
Consensus pattern (22 bp):
TAAAAAAATTTAATCACTTTAA
Found at i:926159 original size:19 final size:19
Alignment explanation
Indices: 926115--926187 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
926105 CTGCCAATTT
* **
926115 CATGTATTGATACAATTGTC
1 CATGTATCGATACAA-TGAA
926135 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
926154 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAATG-A-A
926175 -ATGTATCGATACA
1 CATGTATCGATACA
926188 TCTGGGTGAG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
19 18 0.38
20 28 0.60
21 1 0.02
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:935041 original size:13 final size:13
Alignment explanation
Indices: 935023--935053 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
935013 ACAATTCATT
935023 ATGTATCGATACA
1 ATGTATCGATACA
935036 ATGTATCGATACA
1 ATGTATCGATACA
*
935049 TTGTA
1 ATGTA
935054 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:935060 original size:33 final size:33
Alignment explanation
Indices: 935001--935069 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
934991 CCGTTATAAG
**
935001 CAATGTATCGATACAATTCATTATGTATCGATA
1 CAATGTATCGATACAATTCACCATGTATCGATA
*
935034 CAATGTATCGATAC-ATTGTACCATGTATCGATA
1 CAATGTATCGATACAATT-CACCATGTATCGATA
935067 CAA
1 CAA
935070 ACAGTGGCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
32 3 0.09
33 29 0.91
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.33
Consensus pattern (33 bp):
CAATGTATCGATACAATTCACCATGTATCGATA
Found at i:935142 original size:19 final size:19
Alignment explanation
Indices: 935098--935153 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
935088 CTGCCAATTT
**
935098 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
935118 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
935137 CATGTATCGATACAATG
1 CATGTATCGATACAATG
935154 TATCAATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:936424 original size:106 final size:103
Alignment explanation
Indices: 936226--936539 Score: 371
Period size: 106 Copynumber: 2.9 Consensus size: 103
936216 CAAAGATAAA
* * *
936226 ATTATGAAAATATTT-AGAAACAAAGAGAAAATTGAAGTTTTTTTTGGGAAGAACGAAATTAGAG
1 ATTATGAAAATATTTAAGAAA-AAA-AGTAAATTG-AG--TTTTTTGCGAAGAACGAGATTAGAG
* *
936290 TACTCCCTC-GAAGTAATAGGGTTAGAGTTTTCCCAAAGTCGAAG
61 TA-TCCCTCAG-AGTAGTAGGGTTGGAGTTTTCCCAAAGTCGAAG
*
936334 ATTATGAAAATATTTAAGAATAAAAAGTAAATTAGAGTTTTTTGCGAAGAACGAGACTAGAGTAT
1 ATTATGAAAATATTTAAGAA-AAAAAGTAAATT-GAGTTTTTTGCGAAGAACGAGATTAGAGTAT
*
936399 CCTCTCAGAGTAGTGGGGTTGGAGTTTTCCCAAAGTCGAAG
64 CC-CTCAGAGTAGTAGGGTTGGAGTTTTCCCAAAGTCGAAG
* * *** *
936440 ATTATAAAAATATTTAGGAACAAAAAGTAAATTTGAGTTTTTTTTTAAGAATGAGATTAGAGTAT
1 ATTATGAAAATATTTAAGAA-AAAAAGTAAA-TTGAGTTTTTTGCGAAGAACGAGATTAGAGTAT
*
936505 CCCTTCAGAGTAGTAGGGTTGGAGTTTTTCCAAAG
64 CCC-TCAGAGTAGTAGGGTTGGAGTTTTCCCAAAG
936540 CTAAAATTAT
Statistics
Matches: 182, Mismatches: 17, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
105 4 0.02
106 142 0.78
107 3 0.02
108 24 0.13
109 8 0.04
110 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (103 bp):
ATTATGAAAATATTTAAGAAAAAAAGTAAATTGAGTTTTTTGCGAAGAACGAGATTAGAGTATCC
CTCAGAGTAGTAGGGTTGGAGTTTTCCCAAAGTCGAAG
Found at i:941385 original size:15 final size:15
Alignment explanation
Indices: 941365--941394 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
941355 TTTTGAATGT
941365 ATATTTATACTTAGA
1 ATATTTATACTTAGA
941380 ATATTTATACTTAGA
1 ATATTTATACTTAGA
941395 CAAGTTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (15 bp):
ATATTTATACTTAGA
Found at i:965029 original size:13 final size:13
Alignment explanation
Indices: 965011--965037 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
965001 TACATTGAAT
965011 AATGTATCGATAC
1 AATGTATCGATAC
965024 AATGTATCGATAC
1 AATGTATCGATAC
965037 A
1 A
965038 TGGATCTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:967485 original size:12 final size:12
Alignment explanation
Indices: 967468--967525 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
967458 AATATTTACT
*
967468 ATTAAAATTAAA
1 ATTAAAATCAAA
967480 ATTAAAATCAAA
1 ATTAAAATCAAA
* *
967492 ACTAAAATACATA
1 ATTAAAAT-CAAA
*
967505 ATTATAAT-AAA
1 ATTAAAATCAAA
*
967516 ATCAAAATCA
1 ATTAAAATCA
967526 TCAATAAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
11 8 0.22
12 19 0.53
13 9 0.25
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.28
Consensus pattern (12 bp):
ATTAAAATCAAA
Found at i:968808 original size:131 final size:130
Alignment explanation
Indices: 968568--968812 Score: 314
Period size: 130 Copynumber: 1.8 Consensus size: 130
968558 TTACTTATAC
* * *
968568 TAAATATGGAGTAAGTTTATTAATAGCATAATTTAATAATAACAATTAATAGTTATATAGTAATA
1 TAAATATGAAGTAAGTGTATTAATAGCATAATTTAATAATAACAATTAATAGTTATATAGCAATA
* * * * *
968633 TAATAACATGAAATTATAACTTTATAAACTTAAATATTAATAATATATTGTATGTATTACATGTA
66 CAATAACATAAAATTATAACTATAGAAAATTAAATATT-ATAATATATTGTATGTATTACATGTA
968698 T
130 T
* * *
968699 TAAATATGAAGTTAA-TGTATTAATAGTATAATTTAATAA-ATCAATTAATATTTATATAGCAAT
1 TAAATATGAAG-TAAGTGTATTAATAGCATAATTTAATAATAACAATTAATAGTTATATAGCAAT
968762 ACAATAACATAAAGTATATAGTAACTATAGAAAATTAAATATTAATAATAT
65 ACAATAACATAAA--AT-TA-TAACTATAGAAAATTAAATATT-ATAATAT
968813 GCATAAATAA
Statistics
Matches: 98, Mismatches: 11, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
130 32 0.33
131 32 0.33
132 5 0.05
133 2 0.02
134 27 0.28
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (130 bp):
TAAATATGAAGTAAGTGTATTAATAGCATAATTTAATAATAACAATTAATAGTTATATAGCAATA
CAATAACATAAAATTATAACTATAGAAAATTAAATATTATAATATATTGTATGTATTACATGTAT
Found at i:968941 original size:22 final size:22
Alignment explanation
Indices: 968891--968942 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
968881 GTATACTATA
*
968891 GTTACTTATATTATATATCATAT
1 GTTA-TTAGATTATATATCATAT
** *
968914 AATATTAGATTATATATCTTAT
1 GTTATTAGATTATATATCATAT
968936 GTTATTA
1 GTTATTA
968943 TTAATTTAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.52
Consensus pattern (22 bp):
GTTATTAGATTATATATCATAT
Found at i:970036 original size:16 final size:16
Alignment explanation
Indices: 969984--970062 Score: 88
Period size: 16 Copynumber: 4.9 Consensus size: 16
969974 GAAATGATCA
969984 AAATTTAAAATAATTT
1 AAATTTAAAATAATTT
* * * *
970000 AAACTCAAAATTATCT
1 AAATTTAAAATAATTT
* *
970016 GAATTTAAAAAAATTT
1 AAATTTAAAATAATTT
970032 AAATTT-AAATAATTT
1 AAATTTAAAATAATTT
970047 AAATTTAAAAATAATT
1 AAATTT-AAAATAATT
970063 CGATTCAAAC
Statistics
Matches: 49, Mismatches: 12, Indels: 3
0.77 0.19 0.05
Matches are distributed among these distances:
15 14 0.29
16 27 0.55
17 8 0.16
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (16 bp):
AAATTTAAAATAATTT
Found at i:973333 original size:20 final size:20
Alignment explanation
Indices: 973308--973361 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
973298 ATTTACCTGG
* *
973308 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTCAACA
*
973328 ATGTATCGATACATTCAGCA
1 ATGTATCGATACATTCAACA
973348 ATGTATCGATACAT
1 ATGTATCGATACAT
973362 CTGGGTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTCAACA
Found at i:974314 original size:2 final size:2
Alignment explanation
Indices: 974307--974344 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
974297 ATTCATGAAA
974307 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
974345 CAAGCTCAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:975410 original size:15 final size:13
Alignment explanation
Indices: 975378--975402 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
975368 TACATTTTGG
975378 AATGTATCGATAT
1 AATGTATCGATAT
975391 AATGTATCGATA
1 AATGTATCGATA
975403 CATAATGTGT
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:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (13 bp):
AATGTATCGATAT
Found at i:975506 original size:20 final size:21
Alignment explanation
Indices: 975456--975510 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
975446 GCCAATGACC
**
975456 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
* *
975477 AGTATTGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
975497 TGTATCGATACATT
1 TGTATCGATACATT
975511 GTATCGATAC
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.44
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:977522 original size:21 final size:21
Alignment explanation
Indices: 977490--977542 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
977480 GGCTGCTAGG
**
977490 CTGGGGGCTGCCCGGTTGCGAC
1 CTGGGGG-TGCCCGGTCACGAC
977512 CTGGGGGTG-CCGGTCACGAC
1 CTGGGGGTGCCCGGTCACGAC
977532 CTGGTGGGTGC
1 CTGG-GGGTGC
977543 TGCCTAGGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 13 0.48
21 7 0.26
22 7 0.26
ACGTcount: A:0.06, C:0.28, G:0.47, T:0.19
Consensus pattern (21 bp):
CTGGGGGTGCCCGGTCACGAC
Found at i:979737 original size:25 final size:24
Alignment explanation
Indices: 979709--979833 Score: 106
Period size: 27 Copynumber: 4.9 Consensus size: 24
979699 AAGCCACCCA
979709 TTTGTTTGTCAAAAATGGTGGTTATT
1 TTTGTTTGTCAAAAATGGTGG-T-TT
979735 TTGTGTTTGTCAAAAATGGTGGTTT
1 TT-TGTTTGTCAAAAATGGTGGTTT
* * *
979760 CCTTTGTATTTGTCAAATATGGAGGCTTG
1 --TTTG--TTTGTCAAAAATGGTGG-TTT
* * *
979789 TTTATTTGTCAAAATTGGTGGCTT
1 TTTGTTTGTCAAAAATGGTGGTTT
* *
979813 GTTGTTTGTCAAAATTGGTGG
1 TTTGTTTGTCAAAAATGGTGG
979834 CTAATTTTTA
Statistics
Matches: 82, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
24 20 0.24
25 16 0.20
26 5 0.06
27 24 0.29
28 15 0.18
29 2 0.02
ACGTcount: A:0.21, C:0.07, G:0.26, T:0.46
Consensus pattern (24 bp):
TTTGTTTGTCAAAAATGGTGGTTT
Found at i:979820 original size:24 final size:25
Alignment explanation
Indices: 979766--979835 Score: 99
Period size: 24 Copynumber: 2.8 Consensus size: 25
979756 GTTTCCTTTG
*
979766 TATTTGTC-AAATATGGAGGCTTGTT
1 TATTTGTCAAAAT-TGGTGGCTTGTT
979791 TATTTGTCAAAATTGGTGGCTTG-T
1 TATTTGTCAAAATTGGTGGCTTGTT
*
979815 TGTTTGTCAAAATTGGTGGCT
1 TATTTGTCAAAATTGGTGGCT
979836 AATTTTTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
24 21 0.50
25 17 0.40
26 4 0.10
ACGTcount: A:0.21, C:0.09, G:0.26, T:0.44
Consensus pattern (25 bp):
TATTTGTCAAAATTGGTGGCTTGTT
Found at i:984331 original size:25 final size:24
Alignment explanation
Indices: 984303--984427 Score: 106
Period size: 27 Copynumber: 4.9 Consensus size: 24
984293 AAGCCACCCA
984303 TTTGTTTGTCAAAAATGGTGGTTATT
1 TTTGTTTGTCAAAAATGGTGG-T-TT
984329 TTGTGTTTGTCAAAAATGGTGGTTT
1 TT-TGTTTGTCAAAAATGGTGGTTT
* * *
984354 CCTTTGTATTTGTCAAATATGGAGGCTTG
1 --TTTG--TTTGTCAAAAATGGTGG-TTT
* * *
984383 TTTATTTGTCAAAACTGGTGGCTT
1 TTTGTTTGTCAAAAATGGTGGTTT
* *
984407 GTTGTTTGTCAAAATTGGTGG
1 TTTGTTTGTCAAAAATGGTGG
984428 CTAATTTTTA
Statistics
Matches: 81, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
24 19 0.23
25 16 0.20
26 5 0.06
27 24 0.30
28 15 0.19
29 2 0.02
ACGTcount: A:0.21, C:0.08, G:0.26, T:0.46
Consensus pattern (24 bp):
TTTGTTTGTCAAAAATGGTGGTTT
Found at i:984419 original size:24 final size:24
Alignment explanation
Indices: 984360--984429 Score: 88
Period size: 24 Copynumber: 2.8 Consensus size: 24
984350 GTTTCCTTTG
*
984360 TATTTGTCAAATATGGAGGCTTGTT
1 TATTTGTCAAA-ATGGTGGCTTGTT
984385 TATTTGTCAAAACTGGTGGCTTG-T
1 TATTTGTCAAAA-TGGTGGCTTGTT
*
984409 TGTTTGTCAAAATTGGTGGCT
1 TATTTGTCAAAA-TGGTGGCT
984430 AATTTTTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
24 21 0.51
25 20 0.49
ACGTcount: A:0.21, C:0.10, G:0.26, T:0.43
Consensus pattern (24 bp):
TATTTGTCAAAATGGTGGCTTGTT
Found at i:989188 original size:13 final size:13
Alignment explanation
Indices: 989170--989195 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
989160 ACATTTTGGG
989170 ATGTATCGATACA
1 ATGTATCGATACA
989183 ATGTATCGATACA
1 ATGTATCGATACA
989196 TAATGTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:989192 original size:33 final size:32
Alignment explanation
Indices: 989150--989215 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
989140 TTACAAGCCC
**
989150 ATGTATCGATACATTTTGGGATGTATCGATACA
1 ATGTATCGATACATAATGGG-TGTATCGATACA
*
989183 ATGTATCGATACATAATGTGTGTATCGATACA
1 ATGTATCGATACATAATGGGTGTATCGATACA
989215 A
1 A
989216 ATTTGGCCAC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.43
33 17 0.57
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (32 bp):
ATGTATCGATACATAATGGGTGTATCGATACA
Found at i:989294 original size:20 final size:21
Alignment explanation
Indices: 989247--989301 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
989237 GCCAATGACC
**
989247 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
*
989268 AGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
989288 TGTATCGATACATT
1 TGTATCGATACATT
989302 GTATCGATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:990489 original size:14 final size:14
Alignment explanation
Indices: 990452--990492 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
990442 TAATTTTAAT
990452 TTAATAATAAAAATA
1 TTAAT-ATAAAAATA
*
990467 -CAA-ATAAAAATA
1 TTAATATAAAAATA
990479 TTAATATAAAAATA
1 TTAATATAAAAATA
990493 ATATTTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
12 9 0.41
13 2 0.09
14 11 0.50
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (14 bp):
TTAATATAAAAATA
Found at i:990513 original size:22 final size:21
Alignment explanation
Indices: 990480--990520 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
990470 ATAAAAATAT
990480 TAATATAAAAATAATATTTTAA
1 TAATATAAAAATAA-ATTTTAA
990502 TAATA-AAGAAATAAATTTT
1 TAATATAA-AAATAAATTTT
990521 CACATTAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
TAATATAAAAATAAATTTTAA
Found at i:990809 original size:44 final size:44
Alignment explanation
Indices: 990746--990833 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
990736 CACATGGTAC
990746 ATAGTTCATTCAATGTCTCCAAACACAGGAGAAAAAGAAATATA
1 ATAGTTCATTCAATGTCTCCAAACACAGGAGAAAAAGAAATATA
*
990790 ATAGTTCATTCAATGTCTCCAAACACATGAGAAAAAGAAATATA
1 ATAGTTCATTCAATGTCTCCAAACACAGGAGAAAAAGAAATATA
990834 TTCTCCACAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.24
Consensus pattern (44 bp):
ATAGTTCATTCAATGTCTCCAAACACAGGAGAAAAAGAAATATA
Found at i:991802 original size:2 final size:2
Alignment explanation
Indices: 991791--991822 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
991781 TATCCAAAGC
991791 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
991823 AAATTATGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:992216 original size:33 final size:33
Alignment explanation
Indices: 992169--992247 Score: 110
Period size: 33 Copynumber: 2.5 Consensus size: 33
992159 CTGCTTAGAA
* * *
992169 TCAGTTTTCCACCACTAGTAAAAGTGGTTCTTG
1 TCAGTCTTCTACCACTAGTAAAAGTGGTTCCTG
992202 TCAGTCTTCTACCACTAGTAAAAGTGGTTCCTG
1 TCAGTCTTCTACCACTAGTAAAAGTGGTTCCTG
992235 T---TCTTCTACCACT
1 TCAGTCTTCTACCACT
992248 TGTAGAAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
30 12 0.28
33 31 0.72
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (33 bp):
TCAGTCTTCTACCACTAGTAAAAGTGGTTCCTG
Found at i:998465 original size:2 final size:2
Alignment explanation
Indices: 998460--998488 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
998450 AAAATTGAAA
998460 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
998489 TTTTGCTTCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1003509 original size:60 final size:60
Alignment explanation
Indices: 1003416--1003537 Score: 244
Period size: 60 Copynumber: 2.0 Consensus size: 60
1003406 AATACTTTCA
1003416 TCATGGAATTAAAGTGCAAAGACTACGGTCTAAATGCAAAGTGGAGATTGACTATTTAAG
1 TCATGGAATTAAAGTGCAAAGACTACGGTCTAAATGCAAAGTGGAGATTGACTATTTAAG
1003476 TCATGGAATTAAAGTGCAAAGACTACGGTCTAAATGCAAAGTGGAGATTGACTATTTAAG
1 TCATGGAATTAAAGTGCAAAGACTACGGTCTAAATGCAAAGTGGAGATTGACTATTTAAG
1003536 TC
1 TC
1003538 TTGTGATAAC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (60 bp):
TCATGGAATTAAAGTGCAAAGACTACGGTCTAAATGCAAAGTGGAGATTGACTATTTAAG
Found at i:1004607 original size:5 final size:5
Alignment explanation
Indices: 1004597--1004642 Score: 76
Period size: 5 Copynumber: 9.4 Consensus size: 5
1004587 TCATATCCAA
*
1004597 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATCAT A-TAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
1004643 GCATGTTGCA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
4 3 0.08
5 35 0.92
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (5 bp):
ATTAT
Found at i:1008005 original size:20 final size:20
Alignment explanation
Indices: 1007980--1008076 Score: 81
Period size: 20 Copynumber: 4.7 Consensus size: 20
1007970 TTTTAACTAG
1007980 ATGTATCGATACATTGAGCA
1 ATGTATCGATACATTGAGCA
*
1008000 ATGTATTGATACATCTAGATAG-A
1 ATGTATCGATACAT-T-G--AGCA
* *
1008023 ATGTATCGATACATTCATTC-
1 ATGTATCGATACATTGA-GCA
**
1008043 ATGTATCGATACATTGATAA
1 ATGTATCGATACATTGAGCA
*
1008063 ATGTATCGGTACAT
1 ATGTATCGATACAT
1008077 CTAGGTAAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
19 2 0.03
20 42 0.67
21 1 0.02
22 2 0.03
23 14 0.22
24 2 0.03
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACATTGAGCA
Found at i:1008047 original size:43 final size:40
Alignment explanation
Indices: 1007980--1008076 Score: 115
Period size: 43 Copynumber: 2.4 Consensus size: 40
1007970 TTTTAACTAG
* *
1007980 ATGTATCGATACATTGAGCAATGTATTGATACATCTAGATAGA
1 ATGTATCGATACATTCAGCAATGTATCGATACAT-T-GATA-A
*
1008023 ATGTATCGATACATTCATTC-ATGTATCGATACATTGATAA
1 ATGTATCGATACATTCA-GCAATGTATCGATACATTGATAA
*
1008063 ATGTATCGGTACAT
1 ATGTATCGATACAT
1008077 CTAGGTAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
40 14 0.29
41 4 0.08
42 1 0.02
43 29 0.59
44 1 0.02
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (40 bp):
ATGTATCGATACATTCAGCAATGTATCGATACATTGATAA
Found at i:1009393 original size:92 final size:95
Alignment explanation
Indices: 1009231--1009470 Score: 231
Period size: 95 Copynumber: 2.5 Consensus size: 95
1009221 TATTTAAATC
* * *
1009231 TAAATAAATTAATAAAA-ATGACATTCAAATAGGAAAAA-TTTATTAATTTTAAAGTCGTTTAAT
1 TAAATAAATTAATAAAATAT-ATATTTAAATA--AAAAATTTTATTAA-TTTAAAGTAGTTTAAT
* * *
1009294 ATCATGTGGA-TGTA-TTTACATATTTGTTAATA
62 ATCATGTGAACTCTATTTTACATATTTATTAATA
* *
1009326 TAAATAAATTAA-AAAATATATATTTAAATAAAAAATTTTATTAATTTAAATTAGATTT-ATATT
1 TAAATAAATTAATAAAATATATATTTAAATAAAAAATTTTATTAATTTAAAGTAG-TTTAATATC
* *
1009389 ATGTGAACTCTATTTTTATATATTTATTAATT
65 ATGTGAACTCTA-TTTTACATATTTATTAATA
* * ** *
1009421 TAAATAAATTAATTAAATTATATAATTAAATTTAATATCTTTATTAATTT
1 TAAATAAATTAA-TAAAATATATATTTAAATAAAAAAT-TTTATTAATTT
1009471 TAAAATTTTA
Statistics
Matches: 121, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
92 23 0.19
93 14 0.12
94 13 0.11
95 41 0.34
97 19 0.16
98 11 0.09
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.45
Consensus pattern (95 bp):
TAAATAAATTAATAAAATATATATTTAAATAAAAAATTTTATTAATTTAAAGTAGTTTAATATCA
TGTGAACTCTATTTTACATATTTATTAATA
Found at i:1009901 original size:21 final size:21
Alignment explanation
Indices: 1009863--1009910 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
1009853 TTTTTATTGA
*
1009863 TTAATTTTTCCAAGTGATCAGT
1 TTAATTTTT-CAAGTGATCACT
*
1009885 TTAATTTTT-AAGCTGATTACT
1 TTAATTTTTCAAG-TGATCACT
1009906 TTAAT
1 TTAAT
1009911 CCGCTTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 3 0.13
21 11 0.48
22 9 0.39
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.50
Consensus pattern (21 bp):
TTAATTTTTCAAGTGATCACT
Found at i:1011684 original size:22 final size:22
Alignment explanation
Indices: 1011659--1011734 Score: 91
Period size: 22 Copynumber: 3.4 Consensus size: 22
1011649 AACATAAATT
* *
1011659 TAAACTTAAGCCTATTTAAACC
1 TAAACTAAAGCCTATCTAAACC
*
1011681 TAAACTAAAAGCCAATCTAAACC
1 TAAACT-AAAGCCTATCTAAACC
*
1011704 TAAACTCAAG-CTCATCTAAACC
1 TAAACTAAAGCCT-ATCTAAACC
1011726 TAAACTAAA
1 TAAACTAAA
1011735 AGTCTAATTA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
21 1 0.02
22 26 0.57
23 19 0.41
ACGTcount: A:0.47, C:0.25, G:0.04, T:0.24
Consensus pattern (22 bp):
TAAACTAAAGCCTATCTAAACC
Found at i:1011701 original size:23 final size:22
Alignment explanation
Indices: 1011666--1011736 Score: 90
Period size: 23 Copynumber: 3.1 Consensus size: 22
1011656 ATTTAAACTT
*
1011666 AAGCCTATTTAAACCTAAACTAA
1 AAGCC-ATCTAAACCTAAACTAA
*
1011689 AAGCCAATCTAAACCTAAACT-C
1 AAGCC-ATCTAAACCTAAACTAA
1011711 AAGCTCATCTAAACCTAAACTAA
1 AAGC-CATCTAAACCTAAACTAA
1011734 AAG
1 AAG
1011737 TCTAATTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
22 19 0.45
23 23 0.55
ACGTcount: A:0.48, C:0.25, G:0.06, T:0.21
Consensus pattern (22 bp):
AAGCCATCTAAACCTAAACTAA
Found at i:1012717 original size:6 final size:7
Alignment explanation
Indices: 1012702--1012997 Score: 103
Period size: 7 Copynumber: 41.3 Consensus size: 7
1012692 TTTTCATTTA
1012702 TTTTCTT
1 TTTTCTT
1012709 TTTTCTT
1 TTTTCTT
1012716 TTTT-TAT
1 TTTTCT-T
1012723 ATTTATCTT
1 -TTT-TCTT
*
1012732 ATCTTCATT
1 -TTTTC-TT
1012741 TTTCTCTT
1 TTT-TCTT
1012749 TATTATCTT
1 T-TT-TCTT
1012758 CTTATT-TT
1 -TT-TTCTT
*
1012766 TTGTC-T
1 TTTTCTT
1012772 TTTTCTT
1 TTTTCTT
*
1012779 TTTT-TC
1 TTTTCTT
1012785 TTTTC-T
1 TTTTCTT
*
1012791 TTTCCTT
1 TTTTCTT
*
1012798 TTTCCTT
1 TTTTCTT
* *
1012805 TCTTATT
1 TTTTCTT
1012812 TCTTTCTT
1 T-TTTCTT
1012820 TATTTC-T
1 T-TTTCTT
*
1012827 TTCTCTT
1 TTTTCTT
1012834 TTTTCTTT
1 TTTTC-TT
1012842 TTTTCTCT
1 TTTTCT-T
1012850 TTTT-TCT
1 TTTTCT-T
**
1012857 TCATCTT
1 TTTTCTT
* * **
1012864 TCTACCA
1 TTTTCTT
*
1012871 TTTCCTT
1 TTTTCTT
* *
1012878 TCTTATT
1 TTTTCTT
1012885 TCTTTCTT
1 T-TTTCTT
*
1012893 TTTTCCT
1 TTTTCTT
1012900 TTTTCTCT
1 TTTTCT-T
*
1012908 TTTCCTT
1 TTTTCTT
1012915 TTTT-TT
1 TTTTCTT
1012921 TTTTCTT
1 TTTTCTT
*
1012928 TTCTTCATC
1 TT-TTC-TT
* *
1012937 TCTTGTT
1 TTTTCTT
*
1012944 CTTTCTT
1 TTTTCTT
*
1012951 TTTTCTC
1 TTTTCTT
1012958 TTTT-TT
1 TTTTCTT
1012964 TTTTC-T
1 TTTTCTT
1012970 TTTT-TT
1 TTTTCTT
*
1012976 TTCTCTT
1 TTTTCTT
*
1012983 TTTCCTT
1 TTTTCTT
1012990 TTTT-TT
1 TTTTCTT
1012996 TT
1 TT
1012998 CACTAGTCTA
Statistics
Matches: 214, Mismatches: 49, Indels: 53
0.68 0.16 0.17
Matches are distributed among these distances:
6 43 0.20
7 99 0.46
8 50 0.23
9 19 0.09
10 3 0.01
ACGTcount: A:0.05, C:0.19, G:0.01, T:0.75
Consensus pattern (7 bp):
TTTTCTT
Found at i:1012720 original size:8 final size:8
Alignment explanation
Indices: 1012691--1012994 Score: 86
Period size: 8 Copynumber: 36.6 Consensus size: 8
1012681 AAAAATAAAA
1012691 TTTTTCATT
1 TTTTTC-TT
1012700 TATTTTC-T
1 T-TTTTCTT
1012708 TTTTTCTT
1 TTTTTCTT
* *
1012716 TTTTTATA
1 TTTTTCTT
*
1012724 TTTATCTT
1 TTTTTCTT
* *
1012732 ATCTTCATT
1 TTTTTC-TT
*
1012741 TTTCTCTT
1 TTTTTCTT
*
1012749 TATTATCTT
1 T-TTTTCTT
* *
1012758 CTTAT-TT
1 TTTTTCTT
*
1012765 TTTGTC--
1 TTTTTCTT
1012771 TTTTTCTT
1 TTTTTCTT
1012779 TTTTTCTTT
1 TTTTTC-TT
*
1012788 TCTTTTCCT
1 T-TTTTCTT
*
1012797 TTTTCCTTT
1 TTTTTC-TT
1012806 CTTATTTCTT
1 -TT-TTTCTT
* *
1012816 TCTTTATT
1 TTTTTCTT
*
1012824 TCTTTCTCT
1 TTTTTCT-T
1012833 TTTTTCTT
1 TTTTTCTT
1012841 TTTTTCTCT
1 TTTTTCT-T
1012850 TTTTTCTT
1 TTTTTCTT
* *
1012858 CATCTTTCTAC
1 --TTTTTCT-T
** *
1012869 CATTTCCT
1 TTTTTCTT
* *
1012877 TTCTTATT
1 TTTTTCTT
*
1012885 TCTTTCTT
1 TTTTTCTT
*
1012893 TTTTCCTT
1 TTTTTCTT
*
1012901 TTTCTCTT
1 TTTTTCTT
1012909 TTCCTTT-TT
1 TT--TTTCTT
1012918 TTTTT-TT
1 TTTTTCTT
*
1012925 CTTTTCTT
1 TTTTTCTT
** *
1012933 CATCTCTT
1 TTTTTCTT
1012941 GTTCTTTC-T
1 -TT-TTTCTT
1012950 TTTTTCTCT
1 TTTTTCT-T
1012959 TTTTT-TT
1 TTTTTCTT
*
1012966 TTCTT-TT
1 TTTTTCTT
1012973 TTTTTCTCT
1 TTTTTCT-T
*
1012982 TTTTCCTT
1 TTTTTCTT
1012990 TTTTT
1 TTTTT
1012995 TTTCACTAGT
Statistics
Matches: 216, Mismatches: 53, Indels: 53
0.67 0.16 0.16
Matches are distributed among these distances:
6 5 0.02
7 34 0.16
8 93 0.43
9 56 0.26
10 25 0.12
11 3 0.01
ACGTcount: A:0.06, C:0.19, G:0.01, T:0.75
Consensus pattern (8 bp):
TTTTTCTT
Found at i:1012800 original size:12 final size:12
Alignment explanation
Indices: 1012770--1012842 Score: 51
Period size: 12 Copynumber: 5.9 Consensus size: 12
1012760 TATTTTTTGT
*
1012770 CTTTTTCTTTTT
1 CTTTTTCTTTTC
*
1012782 TTCTTTTCTTTTC
1 CT-TTTTCTTTTC
*
1012795 CTTTTTCCTTT-
1 CTTTTTCTTTTC
1012806 CTTATTTC-TTTC
1 CTT-TTTCTTTTC
*
1012818 TTTATTTCTTTCTC
1 CTT-TTTCTTT-TC
*
1012832 TTTTTTCTTTT
1 CTTTTTCTTTT
1012843 TTTCTCTTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
11 6 0.12
12 21 0.41
13 19 0.37
14 5 0.10
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.77
Consensus pattern (12 bp):
CTTTTTCTTTTC
Found at i:1012863 original size:132 final size:129
Alignment explanation
Indices: 1012741--1012986 Score: 288
Period size: 131 Copynumber: 1.9 Consensus size: 129
1012731 TATCTTCATT
1012741 TTTCTCTTTATTATCTTCTTAT-TTTTTGT-CTTTTTCT-TTTT-TTCTTTTCTTTTCCTTT-TT
1 TTTC-CTTTATTAT-TTCTT-TCTTTTT-TCCTTTTTCTCTTTTCTTCTTTTCTTTTCCTTTCTT
* * *
1012801 CCTTTCTTATTTCTTTCTTTATTTCT-TTCTCTTTTTTCTTTTTTTCTCTTTTTTCTTCATCTTT
62 CATCTCTT-GTTCTTTCTTT-TTTCTCTT-TCTTTTTTCTTTTTTTCTCTTTTTTCTTCATCTTT
1012865 CTACCA
124 CTACCA
* * * *
1012871 TTTCCTTTCTTATTTCTTTCTTTTTTCCTTTTTCTCTTTTCCTTTTTTTTTTTTCTTTTCTTCAT
1 TTTCCTTTATTATTTCTTTCTTTTTTCCTTTTTCTCTTTT-CTTCTTTTCTTTTCCTTTCTTCAT
* *
1012936 CTCTTGTTCTTTCTTTTTTCTCTTTTTTTTTTCTTTTTTTTTCTCTTTTTC
65 CTCTTGTTCTTTCTTTTTTCTCTTTCTTTTTTCTTTTTTTCTCT-TTTTTC
1012987 CTTTTTTTTT
Statistics
Matches: 99, Mismatches: 9, Indels: 15
0.80 0.07 0.12
Matches are distributed among these distances:
127 2 0.02
128 18 0.18
129 12 0.12
130 27 0.27
131 32 0.32
132 8 0.08
ACGTcount: A:0.04, C:0.21, G:0.01, T:0.74
Consensus pattern (129 bp):
TTTCCTTTATTATTTCTTTCTTTTTTCCTTTTTCTCTTTTCTTCTTTTCTTTTCCTTTCTTCATC
TCTTGTTCTTTCTTTTTTCTCTTTCTTTTTTCTTTTTTTCTCTTTTTTCTTCATCTTTCTACCA
Found at i:1012882 original size:73 final size:75
Alignment explanation
Indices: 1012798--1012937 Score: 214
Period size: 73 Copynumber: 1.9 Consensus size: 75
1012788 TCTTTTCCTT
*
1012798 TTTCCTTTCTTATTTCTTTCTTTATTT-CTTTCTCT-TTTTTCTTTTTTTCTCTT-TTTTCTTCA
1 TTTCCTTTCTTATTTCTTTCTTT-TTTCCTTTCTCTCTTTTCCTTTTTTTCTCTTCTTTTCTTCA
1012860 TCTTTCTACCA
65 TCTTTCTACCA
* * *
1012871 TTTCCTTTCTTATTTCTTTCTTTTTTCCTTTTTCTCTTTTCCTTTTTTTTTTTTCTTTTCTTCAT
1 TTTCCTTTCTTATTTCTTTCTTTTTTCCTTTCTCTCTTTTCCTTTTTTTCTCTTCTTTTCTTCAT
1012936 CT
66 CT
1012938 CTTGTTCTTT
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
72 3 0.05
73 30 0.50
74 15 0.25
75 12 0.20
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (75 bp):
TTTCCTTTCTTATTTCTTTCTTTTTTCCTTTCTCTCTTTTCCTTTTTTTCTCTTCTTTTCTTCAT
CTTTCTACCA
Found at i:1014735 original size:21 final size:21
Alignment explanation
Indices: 1014696--1014735 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1014686 AAAATATCAT
* *
1014696 TTTTATTATATGTACATATTG
1 TTTTACTATATATACATATTG
*
1014717 TTTTACTATATATATATAT
1 TTTTACTATATATACATAT
1014736 ATTATTTTCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (21 bp):
TTTTACTATATATACATATTG
Found at i:1016259 original size:21 final size:22
Alignment explanation
Indices: 1016235--1016287 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
1016225 AGTATAACAG
*
1016235 TATGTAAATAT-AACTTAATTA
1 TATGTAAATATAAACTTAACTA
*
1016256 TATGTAAAT-TAAACTTAACTG
1 TATGTAAATATAAACTTAACTA
1016277 TATGTAAATAT
1 TATGTAAATAT
1016288 TTTTTCCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 1 0.04
21 26 0.93
22 1 0.04
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.42
Consensus pattern (22 bp):
TATGTAAATATAAACTTAACTA
Found at i:1017207 original size:28 final size:27
Alignment explanation
Indices: 1017159--1017227 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 27
1017149 ATTCGCCTTC
* *
1017159 CAATTAAATCTTATACGTGTAGAATTTT
1 CAATTAAA-CTTTTACATGTAGAATTTT
*
1017187 CAATTAAACATTTTACATGTATAATTTT
1 CAATTAAAC-TTTTACATGTAGAATTTT
*
1017215 TAATTAAACTTTT
1 CAATTAAACTTTT
1017228 TATTAAATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 5 0.14
28 31 0.86
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (27 bp):
CAATTAAACTTTTACATGTAGAATTTT
Found at i:1017281 original size:28 final size:28
Alignment explanation
Indices: 1017250--1017880 Score: 240
Period size: 28 Copynumber: 22.4 Consensus size: 28
1017240 CTATATAAGC
*
1017250 TTTTCAATTAAACTCTTTATATATAGAA
1 TTTTTAATTAAACTCTTTATATATAGAA
* * *
1017278 TTTTTAATTAAAAT-TTCACATATAG-A
1 TTTTTAATTAAACTCTTTATATATAGAA
* **
1017304 TTATTCAATTAAACT-TTGTGCATAGT-GAA
1 TT-TTTAATTAAACTCTT-TATATA-TAGAA
* * *
1017333 TTTTTAATTAAACT-TTCATATGTAAAA
1 TTTTTAATTAAACTCTTTATATATAGAA
* *
1017360 TTTTCAATTAAAC-CTTTCATATATAAAA
1 TTTTTAATTAAACTCTTT-ATATATAGAA
* * * *
1017388 TTTTTAATTAAAGT-TCTACATGT-GCAA
1 TTTTTAATTAAACTCTTTATATATAG-AA
* * *
1017415 TTTTAAATTAAACTTTCTTATATATAAAA
1 TTTTTAATTAAACTCT-TTATATATAGAA
*** *
1017444 TTTTTAACTTTTTCTTACTTTTTATATATGAA
1 TTTTTAA-TTAAAC-T-CTTTATATATA-GAA
* * * *
1017476 CTTTTTAATTAGACTTTTTTTGTACATATGAAA
1 -TTTTTAATTAAAC--TCTTTATATATA-G-AA
* * *
1017509 TTTTTAATTGAAC-CTTTTACAAATAGAA
1 TTTTTAATTAAACTC-TTTATATATAGAA
* * * *
1017537 TTCTTGATT-AACTTTTTATAAACATA-AA
1 TTTTTAATTAAACTCTTTAT--ATATAGAA
* * *
1017565 ATTTTAATTAAACTTTTTATGTATA-AA
1 TTTTTAATTAAACTCTTTATATATAGAA
* * * * * *
1017592 ATTTTAGTCAAATTCTTTATACATAGAG
1 TTTTTAATTAAACTCTTTATATATAGAA
*
1017620 TTTTTAATTAAA-TCATTTACATATAGAA
1 TTTTTAATTAAACTC-TTTATATATAGAA
* * * * *
1017648 TTTTTAACTGAACAT-TTTAAACAAAGAA
1 TTTTTAATTAAAC-TCTTTATATATAGAA
* * * *
1017676 TTTTTAATTAAACTTTTTACACATAAAA
1 TTTTTAATTAAACTCTTTATATATAGAA
* * *
1017704 TTTTTAATCAAACTCTTCATAGATAGAA
1 TTTTTAATTAAACTCTTTATATATAGAA
** ** * *
1017732 TTTTTAATTAGGCTCTTTGCATGTGGAA
1 TTTTTAATTAAACTCTTTATATATAGAA
* **
1017760 TTTTTAATTAAACT-TCT-TGCAT-GAAA
1 TTTTTAATTAAACTCTTTATATATAG-AA
* * * *
1017786 TTTTTAATTAAACTTTTTAGATGTAAAA
1 TTTTTAATTAAACTCTTTATATATAGAA
* ** *
1017814 TTTTTAATTAAACTTTTTACGTGTAGAA
1 TTTTTAATTAAACTCTTTATATATAGAA
* *
1017842 TTTATAATTAGACT-TTTACT-TATTA-AA
1 TTTTTAATTAAACTCTTTA-TATA-TAGAA
1017869 TTTTTAATTAAA
1 TTTTTAATTAAA
1017881 GCTTCACACA
Statistics
Matches: 450, Mismatches: 118, Indels: 71
0.70 0.18 0.11
Matches are distributed among these distances:
25 1 0.00
26 21 0.05
27 112 0.25
28 226 0.50
29 32 0.07
30 11 0.02
31 9 0.02
32 27 0.06
33 11 0.02
ACGTcount: A:0.37, C:0.09, G:0.06, T:0.47
Consensus pattern (28 bp):
TTTTTAATTAAACTCTTTATATATAGAA
Found at i:1017311 original size:55 final size:54
Alignment explanation
Indices: 1017250--1017450 Score: 187
Period size: 55 Copynumber: 3.6 Consensus size: 54
1017240 CTATATAAGC
* *
1017250 TTTTCAATTAAACTCTTTATATATAGAATTTTTAATTAAAATTTCACATATAGA
1 TTTTCAATTAAACTCTTTATATATAAAATTTTTAATTAAAATTTCACATGTAGA
** * * * *
1017304 TTATTCAATTAAACT-TTGTGCATAGT-GAATTTTTAATTAAACTTTCATATGTAAAA
1 TT-TTCAATTAAACTCTT-TATATA-TAAAATTTTTAATTAAAATTTCACATGT-AGA
*
1017360 TTTTCAATTAAAC-CTTTCATATATAAAATTTTTAATT-AAAGTTCTACATGT-GCAA
1 TTTTCAATTAAACTCTTT-ATATATAAAATTTTTAATTAAAATTTC-ACATGTAG--A
* *
1017415 TTTTAAATTAAACTTTCTTATATATAAAATTTTTAA
1 TTTTCAATTAAACTCT-TTATATATAAAATTTTTAA
1017451 CTTTTTCTTA
Statistics
Matches: 120, Mismatches: 15, Indels: 22
0.76 0.10 0.14
Matches are distributed among these distances:
54 11 0.09
55 84 0.70
56 23 0.19
57 2 0.02
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.46
Consensus pattern (54 bp):
TTTTCAATTAAACTCTTTATATATAAAATTTTTAATTAAAATTTCACATGTAGA
Found at i:1017646 original size:111 final size:112
Alignment explanation
Indices: 1017498--1017741 Score: 271
Period size: 111 Copynumber: 2.2 Consensus size: 112
1017488 ACTTTTTTTG
* * * * *
1017498 TACATATGAAATTTTTAATTGAACCTTTTACAAATAGAATTCTTGA-TTAACTTTTTATAAACAT
1 TACATA-G-AATTTTTAATTAAACCATTTACAAATAGAATTCTTAACTGAAC-ATTT-TAAACA-
*** * * *
1017562 AA-AA-TTTTAATTAAACTTTTTATGTATAAAA-TTTTAGTCAAATTCTTTA
61 AAGAATTTTTAATTAAACTTTTTACACATAAAATTTTTAATCAAACTCTTCA
* * * *
1017611 TACATAGAGTTTTTAATTAAATCATTTACATATAGAATTTTTAACTGAACATTTTAAACAAAGAA
1 TACATAGAATTTTTAATTAAACCATTTACAAATAGAATTCTTAACTGAACATTTTAAACAAAGAA
1017676 TTTTTAATTAAACTTTTTACACATAAAATTTTTAATCAAACTCTTCA
66 TTTTTAATTAAACTTTTTACACATAAAATTTTTAATCAAACTCTTCA
*
1017723 TAGATAGAATTTTTAATTA
1 TACATAGAATTTTTAATTA
1017742 GGCTCTTTGC
Statistics
Matches: 110, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
109 2 0.02
110 8 0.07
111 57 0.52
112 37 0.34
113 6 0.05
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.44
Consensus pattern (112 bp):
TACATAGAATTTTTAATTAAACCATTTACAAATAGAATTCTTAACTGAACATTTTAAACAAAGAA
TTTTTAATTAAACTTTTTACACATAAAATTTTTAATCAAACTCTTCA
Found at i:1017843 original size:82 final size:81
Alignment explanation
Indices: 1017672--1017897 Score: 206
Period size: 82 Copynumber: 2.7 Consensus size: 81
1017662 TTTTAAACAA
* *
1017672 AGAATTTTTAATTAAACTTTTTACACATAAAATTTTTAATCAAACTCTTCATAGATAGAATTTTT
1 AGAATTTTTAATTAAAC-TTTT--ACATAAAATTTTTAATTAAACTCTTCATAGATAAAATTTTT
** *
1017737 AATTAGGCTCTTTGCATGT
63 AATTAAACTCTTTACATGT
* * * *
1017756 GGAATTTTTAATTAAACTTCTTGCATGAAATTTTTAATTAAACT-TT-TTAGATGTAAAATTTTT
1 AGAATTTTTAATTAAACTT-TTACATAAAATTTTTAATTAAACTCTTCATAGA--TAAAATTTTT
* *
1017819 AATTAAACTTTTTACGTGT
63 AATTAAACTCTTTACATGT
* * * * * *
1017838 AGAATTTATAATTAGACTTTTACTTATTAAATTTTTAATTAAA-GCTTCACACATAAAATT
1 AGAATTTTTAATTAAACTTTTAC--ATAAAATTTTTAATTAAACTCTTCATAGATAAAATT
1017898 AGATCTTACA
Statistics
Matches: 115, Mismatches: 20, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
80 4 0.03
81 5 0.04
82 65 0.57
83 21 0.18
84 20 0.17
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.46
Consensus pattern (81 bp):
AGAATTTTTAATTAAACTTTTACATAAAATTTTTAATTAAACTCTTCATAGATAAAATTTTTAAT
TAAACTCTTTACATGT
Found at i:1017897 original size:110 final size:110
Alignment explanation
Indices: 1017558--1017897 Score: 273
Period size: 110 Copynumber: 3.1 Consensus size: 110
1017548 CTTTTTATAA
*** * * * * *
1017558 ACATAAAA-TTTTAATTAAACTTTTTATGTATAAAA-TTTTAGTCAAATTCTTTATACATAGAGT
1 ACATAAAATTTTTAATTAAACTTTTTACACATAAAATTTTTAATCAAACTCTTCATAGATAGAAT
* * * * * *
1017621 TTTTAATTA-AATCATTTACATAT-AGAATTTTTAACTGAACATTTTAA
66 TTATAATTAGACTC-TTTACATATGA-AATTTTTAA-TTAA-ACTTCAC
1017668 ACA-AAGAATTTTTAATTAAACTTTTTACACATAAAATTTTTAATCAAACTCTTCATAGATAGAA
1 ACATAA-AATTTTTAATTAAACTTTTTACACATAAAATTTTTAATCAAACTCTTCATAGATAGAA
* * * * * **
1017732 TTTTTAATTAGGCTCTTTGCATGTGGAATTTTTAATTAAACTTCTT
65 TTTATAATTAGACTCTTTACATATGAAATTTTTAATTAAACTTCAC
* * * ** * * *
1017778 GCATGAAATTTTTAATTAAACTTTTTAGATGTAAAATTTTTAATTAAACT-TT-TTACGTGTAGA
1 ACATAAAATTTTTAATTAAACTTTTTACACATAAAATTTTTAATCAAACTCTTCATA-G-ATAGA
* *
1017841 ATTTATAATTAGACT-TTTACTTATTAAATTTTTAATTAAAGCTTCAC
64 ATTTATAATTAGACTCTTTACATATGAAATTTTTAATTAAA-CTTCAC
1017888 ACATAAAATT
1 ACATAAAATT
1017898 AGATCTTACA
Statistics
Matches: 184, Mismatches: 37, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
108 2 0.01
109 25 0.14
110 79 0.43
111 28 0.15
112 48 0.26
113 2 0.01
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (110 bp):
ACATAAAATTTTTAATTAAACTTTTTACACATAAAATTTTTAATCAAACTCTTCATAGATAGAAT
TTATAATTAGACTCTTTACATATGAAATTTTTAATTAAACTTCAC
Found at i:1018356 original size:12 final size:11
Alignment explanation
Indices: 1018336--1018379 Score: 63
Period size: 12 Copynumber: 4.0 Consensus size: 11
1018326 ACTTCTTAAA
1018336 AAAAAAGAAAG
1 AAAAAAGAAAG
1018347 AAAGAAAGAAAG
1 AAA-AAAGAAAG
*
1018359 AAAAAAAAAAG
1 AAAAAAGAAAG
1018370 -AAAAAGAAAG
1 AAAAAAGAAAG
1018380 TGTTTTTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
10 9 0.30
11 10 0.33
12 11 0.37
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:1018373 original size:8 final size:8
Alignment explanation
Indices: 1018335--1018378 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
1018325 CACTTCTTAA
1018335 AAAAAAAG
1 AAAAAAAG
*
1018343 AAAGAAAG
1 AAAAAAAG
*
1018351 AAAGAAAG
1 AAAAAAAG
*
1018359 AAAAAAAA
1 AAAAAAAG
1018367 AAGAAAAAG
1 AA-AAAAAG
1018376 AAA
1 AAA
1018379 GTGTTTTTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
8 24 0.77
9 7 0.23
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:1018379 original size:4 final size:4
Alignment explanation
Indices: 1018339--1018372 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
1018329 TCTTAAAAAA
*
1018339 AAAG AAAG AAAG AAAG AAAG AAA- AAAA AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
1018373 AAGAAAGTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
3 3 0.11
4 25 0.89
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:1042929 original size:2 final size:2
Alignment explanation
Indices: 1042888--1042920 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
1042878 TAAATAGGGT
*
1042888 TA TA TA TA GA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1042921 GCATATATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1048390 original size:16 final size:15
Alignment explanation
Indices: 1048361--1048402 Score: 59
Period size: 14 Copynumber: 2.7 Consensus size: 15
1048351 AAAAAAAACC
1048361 AATTTTTTAA-TTTT
1 AATTTTTTAACTTTT
1048375 AATTTTTTAACTTTTT
1 AATTTTTTAAC-TTTT
1048391 AATTATTTTAAC
1 AATT-TTTTAAC
1048403 GTCGTTGGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 10 0.40
16 8 0.32
17 7 0.28
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (15 bp):
AATTTTTTAACTTTT
Found at i:1048399 original size:9 final size:8
Alignment explanation
Indices: 1048361--1048401 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
1048351 AAAAAAAACC
1048361 AATTTTTT
1 AATTTTTT
1048369 AA--TTTT
1 AATTTTTT
1048375 AATTTTTT
1 AATTTTTT
*
1048383 AACTTTTT
1 AATTTTTT
1048391 AATTATTTT
1 AATT-TTTT
1048400 AA
1 AA
1048402 CGTCGTTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
6 6 0.21
8 16 0.57
9 6 0.21
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (8 bp):
AATTTTTT
Found at i:1049676 original size:2 final size:2
Alignment explanation
Indices: 1049669--1049698 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1049659 GATTTTCGGT
*
1049669 TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1049699 AAAGGTCGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:1057577 original size:70 final size:70
Alignment explanation
Indices: 1057483--1057618 Score: 254
Period size: 70 Copynumber: 1.9 Consensus size: 70
1057473 GAAATTTTCG
*
1057483 TCGAAAATGGTTTGTCTGACCGAAATAGAAAATAAATATTTTATTTTTTATTTAATTACAAAAAA
1 TCGAAAATGGTTTGTCTGACCGAAATAGAAAATAAATATTTAATTTTTTATTTAATTACAAAAAA
1057548 ATTCA
66 ATTCA
*
1057553 TCGAAAATGGTTTGTCTGATCGAAATAGAAAATAAATATTTAATTTTTTATTTAATTACAAAAAA
1 TCGAAAATGGTTTGTCTGACCGAAATAGAAAATAAATATTTAATTTTTTATTTAATTACAAAAAA
1057618 A
66 A
1057619 AATCAACTAA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 64 1.00
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.38
Consensus pattern (70 bp):
TCGAAAATGGTTTGTCTGACCGAAATAGAAAATAAATATTTAATTTTTTATTTAATTACAAAAAA
ATTCA
Found at i:1060410 original size:2 final size:2
Alignment explanation
Indices: 1060403--1060453 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
1060393 AACAAAGGCA
*
1060403 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
1060445 AT AT GT AT A
1 AT AT AT AT A
1060454 ATCAAAGGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1061205 original size:18 final size:19
Alignment explanation
Indices: 1061169--1061214 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
1061159 TTGAGTAAAT
*
1061169 ATAAATATAATATAAATTA
1 ATAAATATAATAAAAATTA
1061188 ATAAATAT-ATAAAAATT-
1 ATAAATATAATAAAAATTA
*
1061205 ATATATATAA
1 ATAAATATAA
1061215 ATATTTATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 7 0.29
18 9 0.38
19 8 0.33
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
ATAAATATAATAAAAATTA
Found at i:1061456 original size:17 final size:17
Alignment explanation
Indices: 1061434--1061469 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
1061424 TTTATTGGCC
1061434 TAAGTGCTCTAAAATCA
1 TAAGTGCTCTAAAATCA
1061451 TAAGTGCTCTAAAATCA
1 TAAGTGCTCTAAAATCA
1061468 TA
1 TA
1061470 GGGATACATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.31
Consensus pattern (17 bp):
TAAGTGCTCTAAAATCA
Found at i:1061618 original size:11 final size:11
Alignment explanation
Indices: 1061576--1061639 Score: 51
Period size: 11 Copynumber: 5.8 Consensus size: 11
1061566 TTGGTTTAAA
1061576 ATTTTT-TATT
1 ATTTTTATATT
1061586 ATTTATTATATT
1 ATTT-TTATATT
***
1061598 ATTAAAATATT
1 ATTTTTATATT
1061609 ATTTTTATATT
1 ATTTTTATATT
* *
1061620 AATATTTAT-CT
1 -ATTTTTATATT
1061631 ATTTTTATA
1 ATTTTTATA
1061640 ATTAAATTTT
Statistics
Matches: 41, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
10 11 0.27
11 16 0.39
12 14 0.34
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTTTTATATT
Found at i:1068277 original size:20 final size:20
Alignment explanation
Indices: 1068252--1068292 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
1068242 TTTCCTATCA
1068252 TAATATCCATTTTTAATTGT
1 TAATATCCATTTTTAATTGT
1068272 TAATATCCATTTTTAATTGT
1 TAATATCCATTTTTAATTGT
1068292 T
1 T
1068293 TGGTGCAAAT
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:0.29, C:0.10, G:0.05, T:0.56
Consensus pattern (20 bp):
TAATATCCATTTTTAATTGT
Found at i:1068535 original size:19 final size:19
Alignment explanation
Indices: 1068508--1068546 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
1068498 GCGTCCCTAT
*
1068508 TGAAGAGAGAGATTTAGAA
1 TGAAAAGAGAGATTTAGAA
1068527 TGAAAAGAGAGATTTAGAA
1 TGAAAAGAGAGATTTAGAA
1068546 T
1 T
1068547 ACAAGAGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.28, T:0.23
Consensus pattern (19 bp):
TGAAAAGAGAGATTTAGAA
Found at i:1068724 original size:54 final size:54
Alignment explanation
Indices: 1068660--1068762 Score: 154
Period size: 54 Copynumber: 1.9 Consensus size: 54
1068650 ATCTTTGATA
*
1068660 GTGATTACAATCAAAGATACGTTAACAATATGCT-AACAATGCAAGATATTCATG
1 GTGATTACAATCAAAGATACGCTAACAATATGCTGAA-AATGCAAGATATTCATG
* * *
1068714 GTGATTACAATCAAAGATATGCTGACAATATGTTGAAAATGCAAGATAT
1 GTGATTACAATCAAAGATACGCTAACAATATGCTGAAAATGCAAGATAT
1068763 CTTAGTAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
54 42 0.95
55 2 0.05
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.28
Consensus pattern (54 bp):
GTGATTACAATCAAAGATACGCTAACAATATGCTGAAAATGCAAGATATTCATG
Found at i:1073881 original size:20 final size:19
Alignment explanation
Indices: 1073848--1073909 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 19
1073838 AAAAATTTTG
1073848 TTAATTGATAAAAAAATTAAT
1 TTAATT-AT-AAAAAATTAAT
*
1073869 TTAATTAATAAAAAA-TCAT
1 TTAATT-ATAAAAAATTAAT
*
1073888 ATTAAATATAAAAAATTAAT
1 -TTAATTATAAAAAATTAAT
1073908 TT
1 TT
1073910 TAAATTTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
19 13 0.37
20 14 0.40
21 8 0.23
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
TTAATTATAAAAAATTAAT
Found at i:1073912 original size:20 final size:21
Alignment explanation
Indices: 1073858--1073914 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 21
1073848 TTAATTGATA
*
1073858 AAAAAATTAA-TTTAATTAAT
1 AAAAAATTAATTTTAAATAAT
* *
1073878 AAAAAA-TCATATTAAAT-AT
1 AAAAAATTAATTTTAAATAAT
1073897 AAAAAATTAATTTTAAAT
1 AAAAAATTAATTTTAAAT
1073915 TTATTTTTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
19 10 0.33
20 20 0.67
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
AAAAAATTAATTTTAAATAAT
Found at i:1085962 original size:67 final size:67
Alignment explanation
Indices: 1085854--1085981 Score: 256
Period size: 67 Copynumber: 1.9 Consensus size: 67
1085844 TATTGCAAAA
1085854 ATGTGATGTTTGTTTACAAGAACAAAATTTAGCTACTCTATGTTTATGCTATTGCCAACACTGCA
1 ATGTGATGTTTGTTTACAAGAACAAAATTTAGCTACTCTATGTTTATGCTATTGCCAACACTGCA
1085919 AT
66 AT
1085921 ATGTGATGTTTGTTTACAAGAACAAAATTTAGCTACTCTATGTTTATGCTATTGCCAACAC
1 ATGTGATGTTTGTTTACAAGAACAAAATTTAGCTACTCTATGTTTATGCTATTGCCAACAC
1085982 CTTTAGCAGC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (67 bp):
ATGTGATGTTTGTTTACAAGAACAAAATTTAGCTACTCTATGTTTATGCTATTGCCAACACTGCA
AT
Found at i:1089920 original size:85 final size:84
Alignment explanation
Indices: 1089692--1090018 Score: 304
Period size: 84 Copynumber: 3.8 Consensus size: 84
1089682 AAATTTTTCA
* * * * *
1089692 TTTT-GGGGAAACTCCATCCCCACTGTGTCAAGGGTATACTCTAACTTCGATCTTCAAAAAACTC
1 TTTTAGGGGAAACTCTATCCCCACT-TTTCAAGGGGATACTCTAACCTCGATCTTCAAAAAAATC
* *
1089756 AAACTTTTTCTTCGTATATT
65 AAACTTTTTCTTCGTACAAT
* ** * * * * *
1089776 TTTTGGGGGAAACTCTATCCTTACTATTTCGA-GGTATACTCTAACCTCGATTTTTAAAAAAATT
1 TTTTAGGGGAAACTCTATCCCCACT-TTTCAAGGGGATACTCTAACCTCGATCTTCAAAAAAATC
* *
1089840 AAACTTTTTATTCGTAGAAT
65 AAACTTTTTCTTCGTACAAT
1089860 TTTTAGGGGAAACTCTATCCCCACTCTTTCAAGGGGATACTCTAACCTCGATCTTC-AAAAAATG
1 TTTTAGGGGAAACTCTATCCCCACT-TTTCAAGGGGATACTCTAACCTCGATCTTCAAAAAAAT-
* * *
1089924 TAAA-TTTTCCTTCGCACAATT
64 CAAACTTTTTCTTCGTACAA-T
* * *
1089945 TCATCCTTAGGGGAAATTCTATCCCCACTTTTCTGAGGGGATACTCCAACCTC-ATCATTCATAA
1 T--T--TTAGGGGAAACTCTATCCCCACTTTTC-AAGGGGATACTCTAACCTCGATC-TTCA-AA
1090009 AAAATCAAAC
59 AAAATCAAAC
1090019 CTTTACTTTG
Statistics
Matches: 200, Mismatches: 30, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
84 93 0.47
85 47 0.23
87 1 0.00
88 7 0.04
89 42 0.21
90 3 0.01
91 7 0.04
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.35
Consensus pattern (84 bp):
TTTTAGGGGAAACTCTATCCCCACTTTTCAAGGGGATACTCTAACCTCGATCTTCAAAAAAATCA
AACTTTTTCTTCGTACAAT
Found at i:1095702 original size:24 final size:26
Alignment explanation
Indices: 1095659--1095719 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 26
1095649 TAATTTTTAT
* *
1095659 ATTATAAAAATTACTTAATATTA-A-A
1 ATTAT-AAAATTAATAAATATTATATA
1095684 ATTATAAAATTAATAAATATTATATA
1 ATTATAAAATTAATAAATATTATATA
*
1095710 ATTAAAAAAT
1 ATTATAAAAT
1095720 GAGTTAATTG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 15 0.48
25 6 0.19
26 10 0.32
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (26 bp):
ATTATAAAATTAATAAATATTATATA
Found at i:1095707 original size:18 final size:18
Alignment explanation
Indices: 1095680--1095719 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
1095670 TACTTAATAT
1095680 TAAA-ATTATAAAATTAA
1 TAAATATTATAAAATTAA
*
1095697 TAAATATTATATAATTAA
1 TAAATATTATAAAATTAA
*
1095715 AAAAT
1 TAAAT
1095720 GAGTTAATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAATATTATAAAATTAA
Found at i:1097973 original size:79 final size:79
Alignment explanation
Indices: 1097823--1097991 Score: 212
Period size: 79 Copynumber: 2.1 Consensus size: 79
1097813 ACGACGAGGC
* * * ** *
1097823 TGGAGTACCCCTGATTATGGAAAATCGGTGTTCTGAAAATAAAATTGGGGTTGGAGTATCCCCTT
1 TGGAGTATCCCTAATTATAGAAAATCGGTGTTCTGAAAATAAAATCAGGGTTGGAGTATCCCCTC
**
1097888 GGAAATAACAGGGT
66 AAAAATAACAGGGT
* * *
1097902 TGGAGTATCCCTAATTATAGAAAATTGGTGTTTTGAAAATAAAATCAGGGTTGGAGTATTCCCTC
1 TGGAGTATCCCTAATTATAGAAAATCGGTGTTCTGAAAATAAAATCAGGGTTGGAGTATCCCCTC
*
1097967 AAAAATAACGGGGT
66 AAAAATAACAGGGT
* *
1097981 TGAAATATCCC
1 TGGAGTATCCC
1097992 CGCGAAAATA
Statistics
Matches: 76, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
79 76 1.00
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (79 bp):
TGGAGTATCCCTAATTATAGAAAATCGGTGTTCTGAAAATAAAATCAGGGTTGGAGTATCCCCTC
AAAAATAACAGGGT
Found at i:1098017 original size:28 final size:28
Alignment explanation
Indices: 1097949--1098018 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
1097939 AATAAAATCA
* *
1097949 GGGTTGGAGTATTCCCTCAAAAATAACG
1 GGGTTGGAGTATCCCCGCAAAAATAACG
* * *
1097977 GGGTTGAAATATCCCCGCGAAAATAACG
1 GGGTTGGAGTATCCCCGCAAAAATAACG
1098005 GGGTTGGAGTATCC
1 GGGTTGGAGTATCC
1098019 TCGATTGTGA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.23
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCGCAAAAATAACG
Found at i:1098058 original size:79 final size:79
Alignment explanation
Indices: 1097975--1098394 Score: 653
Period size: 79 Copynumber: 5.3 Consensus size: 79
1097965 TCAAAAATAA
* * * * *
1097975 CGGGGTTGAAATATCCCCGCGAAAATAACGGGGTTGGAGTATCCTCGATTGTGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAT
**
1098040 TTTAGGAATAAAAT
66 TTTAGGAATAAAGC
*
1098054 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAT
1098119 TTTAGGAATAAAGC
66 TTTAGGAATAAAGC
1098133 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAT
1098198 TTTAGGAATAAAGC
66 TTTAGGAATAAAGC
* * *
1098212 CGGGGTTGGAGTATCCCCT-TAGAAATAACGAGGTTGGAGTATCCCCGATTATGAGACATCAATA
1 CGGGGTTGGAGTATCCCCTCGA-AAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATA
1098276 TTTTAGGAATAAAGC
65 TTTTAGGAATAAAGC
* * * * * *
1098291 CGGGGTTGGAATATCCCCTTGGAAATAACGAGTTTGGAGTATCCCCGATTATGAGACATCAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAT
1098356 TTTAGGAATAAAGC
66 TTTAGGAATAAAGC
*
1098370 CGGGGTTAGAGTATCCCCTCAGAAA
1 CGGGGTTGGAGTATCCCCTC-GAAA
1098395 TTGGTGTTTT
Statistics
Matches: 320, Mismatches: 18, Indels: 5
0.93 0.05 0.01
Matches are distributed among these distances:
78 1 0.00
79 316 0.99
80 3 0.01
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAT
TTTAGGAATAAAGC
Found at i:1098460 original size:51 final size:49
Alignment explanation
Indices: 1098392--1098549 Score: 192
Period size: 51 Copynumber: 3.1 Consensus size: 49
1098382 ATCCCCTCAG
* *
1098392 AAATTGGTGTTTTGAAAATAAAACCAGGGTTGGAGTATCCCTGATTGTGGA
1 AAATTAGTG-TTTGAAAATAAAACC-GGGTTGGAGTATCCCCGATTGTGGA
*
1098443 AAATTAGTGTTTCGAAAATAAAATCGGAGTTGGAGTATCCCCGATTGTGGA
1 AAATTAGTGTTT-GAAAATAAAACCGG-GTTGGAGTATCCCCGATTGTGGA
* * *
1098494 AAATTAGTGTTTTAGAAATAAAACCGGGGTTGGAGTA-CCTCCGATTATGAA
1 AAATTAGTGTTTGA-AAATAAAACC-GGGTTGGAGTATCC-CCGATTGTGGA
1098545 AAATT
1 AAATT
1098550 GAGAAACTTA
Statistics
Matches: 95, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
50 8 0.08
51 85 0.89
52 2 0.02
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (49 bp):
AAATTAGTGTTTGAAAATAAAACCGGGTTGGAGTATCCCCGATTGTGGA
Found at i:1100895 original size:40 final size:40
Alignment explanation
Indices: 1100842--1100935 Score: 161
Period size: 40 Copynumber: 2.4 Consensus size: 40
1100832 AAAATGCCTG
*
1100842 AATGTATCAATACAATGAGCAATGTATCGATACAATGCAA
1 AATGTATCGATACAATGAGCAATGTATCGATACAATGCAA
*
1100882 AATGTATCGATACAATGAGCAGTGTATCGATACAATGCAA
1 AATGTATCGATACAATGAGCAATGTATCGATACAATGCAA
*
1100922 AATGCATCGATACA
1 AATGTATCGATACA
1100936 TCTGGGTAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.24
Consensus pattern (40 bp):
AATGTATCGATACAATGAGCAATGTATCGATACAATGCAA
Found at i:1100930 original size:20 final size:20
Alignment explanation
Indices: 1100842--1100935 Score: 111
Period size: 20 Copynumber: 4.7 Consensus size: 20
1100832 AAAATGCCTG
* *
1100842 AATGTATCAATACAATG-AGC
1 AATGTATCGATACAATGCA-A
1100862 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATGCAA
*
1100882 AATGTATCGATACAATG-AGC
1 AATGTATCGATACAATGCA-A
*
1100902 AGTGTATCGATACAATGCAA
1 AATGTATCGATACAATGCAA
*
1100922 AATGCATCGATACA
1 AATGTATCGATACA
1100936 TCTGGGTAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
19 1 0.02
20 61 0.95
21 2 0.03
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.24
Consensus pattern (20 bp):
AATGTATCGATACAATGCAA
Found at i:1100978 original size:20 final size:20
Alignment explanation
Indices: 1100953--1101007 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
1100943 AAACTTTCTA
1100953 GATGTATCGATACAAAGATC
1 GATGTATCGATACAAAGATC
1100973 GATGTATCGATACAAAGATC
1 GATGTATCGATACAAAGATC
1100993 GATGTATCGATACAA
1 GATGTATCGATACAA
1101008 TGTATCGATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (20 bp):
GATGTATCGATACAAAGATC
Found at i:1101012 original size:13 final size:13
Alignment explanation
Indices: 1100994--1101019 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1100984 ACAAAGATCG
1100994 ATGTATCGATACA
1 ATGTATCGATACA
1101007 ATGTATCGATACA
1 ATGTATCGATACA
1101020 TTTAATAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1101911 original size:73 final size:72
Alignment explanation
Indices: 1101832--1102036 Score: 218
Period size: 73 Copynumber: 2.8 Consensus size: 72
1101822 TATAAAAATA
*
1101832 TTTTTGTATAATTATATAAGTTTAAATTTTATAAGATATGATTTATTTTTATTTGTAAAAGTTTA
1 TTTTTGT-TAATTATACAAGTTTAAATTTT-TAAGATATGATTTATTTTTATTTGTAAAAGTTTA
**
1101897 AATTTAT-T
64 AATAAATCT
* * * * *
1101905 TTTTTGTTTGATCATACGAGTTTCAAATTTTTATGATATGATTTATTTTTATTTGTAGAAGTTTA
1 TTTTTG-TTAATTATACAAGTTT-AAATTTTTAAGATATGATTTATTTTTATTTGTAAAAGTTTA
1101970 AATAAATCT
64 AATAAATCT
** * * *
1101979 TTTGAGTTAATTATAGGAA-TTT-AATTTTGTAAGGTATGATCTATTTTTATTTGTAAAA
1 TTTTTGTTAATTATA-CAAGTTTAAATTTT-TAAGATATGATTTATTTTTATTTGTAAAA
1102037 TTAGTTTGAT
Statistics
Matches: 109, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
71 6 0.06
72 25 0.23
73 64 0.59
74 14 0.13
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.53
Consensus pattern (72 bp):
TTTTTGTTAATTATACAAGTTTAAATTTTTAAGATATGATTTATTTTTATTTGTAAAAGTTTAAA
TAAATCT
Found at i:1102255 original size:72 final size:71
Alignment explanation
Indices: 1102170--1102510 Score: 352
Period size: 72 Copynumber: 4.7 Consensus size: 71
1102160 TTTTCAAGTA
* *
1102170 TGATTATATGAGTTTAAATTTTTAAGGTATAATTTATTTTTATTTGTAAAAATTTAAATTTGGTT
1 TGATTATATGAGTTTAAATTTTTAA-GTATAATTTATTTTTATTTGTAGAAATTTAAATTTGTTT
1102235 TTTAGTT
65 TTTAGTT
* *
1102242 TGATTATATGAGTTTAAATTTTTAATGTATTATTTA--TTT-TTTGTAGAAATTTAAATTTATTT
1 TGATTATATGAGTTTAAATTTTTAA-GTATAATTTATTTTTATTTGTAGAAATTTAAATTTGTTT
* *
1102304 TTTGGATA
65 TTTAG-TT
* * * * *
1102312 TGATTATACGAGTTTAAATTTTTTAAGTATAATTTATATTTATTTATAGAAGTTTAAATTTATTT
1 TGATTATATGAGTTTAAA-TTTTTAAGTATAATTTATTTTTATTTGTAGAAATTTAAATTTGTTT
*
1102377 TCTAGTT
65 TTTAGTT
* ** * *
1102384 TGATTATATAAGTTTAAATTTTTTTG-ATAAGATTTATTTTTATTTTTAGAAGTTTAAATTTGTT
1 TGATTATATGAGTTTAAATTTTTAAGTAT-A-ATTTATTTTTATTTGTAGAAATTTAAATTTGTT
* *
1102448 TTTTGGAT
64 TTTTAGTT
* * *
1102456 AGATTATGA-GAGTTAAAATTTTTTTGAAGTATGATTTATTTTTATTTGTA-AAATT
1 TGATTAT-ATGAGTTTAAA--TTTTT-AAGTATAATTTATTTTTATTTGTAGAAATT
1102511 ACTTTAACTT
Statistics
Matches: 225, Mismatches: 32, Indels: 23
0.80 0.11 0.08
Matches are distributed among these distances:
69 24 0.11
70 32 0.14
71 14 0.06
72 102 0.45
73 29 0.13
74 21 0.09
75 1 0.00
76 2 0.01
ACGTcount: A:0.32, C:0.01, G:0.12, T:0.55
Consensus pattern (71 bp):
TGATTATATGAGTTTAAATTTTTAAGTATAATTTATTTTTATTTGTAGAAATTTAAATTTGTTTT
TTAGTT
Done.