Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000186.1 Hibiscus syriacus cultivar Beakdansim tig00000329_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3152351
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 13 of 17
Found at i:2201765 original size:17 final size:18
Alignment explanation
Indices: 2201738--2201774 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
2201728 AATAAAAATA
2201738 TAAAGATAAAAGTTTAAT
1 TAAAGATAAAAGTTTAAT
*
2201756 TAAA-ATAAAATTTTAAT
1 TAAAGATAAAAGTTTAAT
2201773 TA
1 TA
2201775 TAAACTTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (18 bp):
TAAAGATAAAAGTTTAAT
Found at i:2207503 original size:19 final size:19
Alignment explanation
Indices: 2207481--2207547 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
2207471 TATGTTTTCG
*
2207481 ATGAATAATACTATACGGT
1 ATGAATAATACTATACTGT
*
2207500 ATGAATAGTACTATACTGT
1 ATGAATAATACTATACTGT
* *
2207519 ATGAATAGTATTATACTGT
1 ATGAATAATACTATACTGT
*
2207538 ATGAACAATA
1 ATGAATAATA
2207548 TCGTAAACAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.34
Consensus pattern (19 bp):
ATGAATAATACTATACTGT
Found at i:2207653 original size:21 final size:23
Alignment explanation
Indices: 2207621--2207667 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
2207611 CTAGAATTGA
*
2207621 ACAATGGTACCGATATCC-TGCT
1 ACAATGGTACCGATACCCTTGCT
2207643 ACAAT-GTACCGATACCCTTGCT
1 ACAATGGTACCGATACCCTTGCT
2207665 ACA
1 ACA
2207668 GTAACTTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.26
Consensus pattern (23 bp):
ACAATGGTACCGATACCCTTGCT
Found at i:2208446 original size:31 final size:31
Alignment explanation
Indices: 2208411--2208518 Score: 128
Period size: 31 Copynumber: 3.5 Consensus size: 31
2208401 TAGGTCATAA
* *
2208411 AGAACCTAGGTAAATTGTCCATATGTTCCTT
1 AGAACATAGGTAAATTGTCCATATGTTCCAT
* * * *
2208442 AGAACATAGGTATACTGTCCATATGTCCCGAA
1 AGAACATAGGTAAATTGTCCATATGTTCC-AT
*
2208474 AG-ACATAGGTAATTCTGTCCATATGTTCCAT
1 AGAACATAGGTAAAT-TGTCCATATGTTCCAT
2208505 AGAACATAGGTAAA
1 AGAACATAGGTAAA
2208519 CCCTCGACTC
Statistics
Matches: 62, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
31 37 0.60
32 25 0.40
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.30
Consensus pattern (31 bp):
AGAACATAGGTAAATTGTCCATATGTTCCAT
Found at i:2212101 original size:64 final size:64
Alignment explanation
Indices: 2211988--2212111 Score: 178
Period size: 64 Copynumber: 1.9 Consensus size: 64
2211978 GTGCACCAAG
* ** *
2211988 TGTGCATCGATGCATAAAATGCATTCGATGTTTGAAAATAGCCTGAGTGCATCGGTGCATTGCT
1 TGTGCATCGATGCATAAAATGCATTCGATGTTTGAAAATAACCCAAGTGCATCGATGCATTGCT
* *
2212052 TGTGCATCGATGCATGAAATGCATTCGATGTTTTAATAA-AACCCAAGTGCATCGATGCAT
1 TGTGCATCGATGCATAAAATGCATTCGATGTTTGAA-AATAACCCAAGTGCATCGATGCAT
2212112 GAAATGCATT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
64 51 0.96
65 2 0.04
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.31
Consensus pattern (64 bp):
TGTGCATCGATGCATAAAATGCATTCGATGTTTGAAAATAACCCAAGTGCATCGATGCATTGCT
Found at i:2212536 original size:19 final size:20
Alignment explanation
Indices: 2212498--2212537 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
2212488 TTTGAAATTA
*
2212498 CTCCCCCTTACTATAACATTT
1 CTCCCCCTTA-TAAAACATTT
2212519 CTCCCCCTT-TAAAACATTT
1 CTCCCCCTTATAAAACATTT
2212538 TACACTTCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
21 9 0.50
ACGTcount: A:0.25, C:0.38, G:0.00, T:0.38
Consensus pattern (20 bp):
CTCCCCCTTATAAAACATTT
Found at i:2220781 original size:64 final size:63
Alignment explanation
Indices: 2220666--2220788 Score: 167
Period size: 64 Copynumber: 1.9 Consensus size: 63
2220656 GTGCACCAAG
* ** * *
2220666 TGTGCATCGATGCATAAATGCATTCGATGTTTGAAAATAGCCTGATTGCATCGATGCATTGCT
1 TGTGCATCGATGCATAAATACATTCGATGTTTGAAAATAGCCCAAGTGCATCAATGCATTGCT
*
2220729 TGTGCATCGATGCATGAAATACATTCGATGTTTTAATAA-AGCCCAAGTGCATCAATGCAT
1 TGTGCATCGATGCAT-AAATACATTCGATGTTTGAA-AATAGCCCAAGTGCATCAATGCAT
2220789 GAAATGCATT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
63 15 0.29
64 35 0.67
65 2 0.04
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (63 bp):
TGTGCATCGATGCATAAATACATTCGATGTTTGAAAATAGCCCAAGTGCATCAATGCATTGCT
Found at i:2226259 original size:2 final size:2
Alignment explanation
Indices: 2226252--2226286 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2226242 TATTTTACAT
2226252 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
2226287 TTGTATGTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:2226295 original size:4 final size:4
Alignment explanation
Indices: 2226288--2226312 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
2226278 TGTGTGTGTT
2226288 TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA T
2226313 ACCAACAGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TGTA
Found at i:2233549 original size:6 final size:6
Alignment explanation
Indices: 2233538--2233562 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
2233528 GACACGTATT
2233538 ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG A
2233563 GCCGAGCCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.48, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:2235484 original size:21 final size:21
Alignment explanation
Indices: 2235458--2235513 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
2235448 TCTTGATGTT
2235458 TTAAGCTTATATAAGCTTTCC
1 TTAAGCTTATATAAGCTTTCC
2235479 TTAAGCTTATATAAGCTTTCC
1 TTAAGCTTATATAAGCTTTCC
2235500 TTAAGCTTATATAA
1 TTAAGCTTATATAA
2235514 CACCCAAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.32, C:0.16, G:0.09, T:0.43
Consensus pattern (21 bp):
TTAAGCTTATATAAGCTTTCC
Found at i:2241880 original size:26 final size:26
Alignment explanation
Indices: 2241847--2241900 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
2241837 TAAAAAACGC
*
2241847 TATAATTTGGACACTTATTTTTATAT
1 TATAATTTGGACACTTATTTTGATAT
2241873 TATAATTTGGACACTTATTTTGATAT
1 TATAATTTGGACACTTATTTTGATAT
2241899 TA
1 TA
2241901 ATCCTTTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.31, C:0.07, G:0.09, T:0.52
Consensus pattern (26 bp):
TATAATTTGGACACTTATTTTGATAT
Found at i:2247724 original size:21 final size:21
Alignment explanation
Indices: 2247691--2247730 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2247681 CTACCCCTAA
*
2247691 CTTAAACCGTAAAATATAAAT
1 CTTAAACCCTAAAATATAAAT
* *
2247712 CTTAAGCCCTAAATTATAA
1 CTTAAACCCTAAAATATAA
2247731 CTCCATATCC
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:0.47, C:0.17, G:0.05, T:0.30
Consensus pattern (21 bp):
CTTAAACCCTAAAATATAAAT
Found at i:2249134 original size:2 final size:2
Alignment explanation
Indices: 2249127--2249159 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2249117 ATATACAAGC
2249127 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2249160 GGTTGATTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2260197 original size:20 final size:19
Alignment explanation
Indices: 2260174--2260210 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2260164 AGAACCCCAG
*
2260174 GGGGGTATCGATTCCCCTA
1 GGGGGAATCGATTCCCCTA
*
2260193 GGGGGAATCGGTTCCCCT
1 GGGGGAATCGATTCCCCT
2260211 TCAAAGGGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.14, C:0.27, G:0.35, T:0.24
Consensus pattern (19 bp):
GGGGGAATCGATTCCCCTA
Found at i:2260222 original size:23 final size:21
Alignment explanation
Indices: 2260174--2260240 Score: 75
Period size: 23 Copynumber: 3.2 Consensus size: 21
2260164 AGAACCCCAG
* *
2260174 GGGGGTATCGATTCCCCT--A
1 GGGGGAATCGGTTCCCCTCAA
2260193 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTTCCCC-TC-AA
*
2260216 GGGGGAATTGGTTCCCCTCAA
1 GGGGGAATCGGTTCCCCTCAA
2260237 GGGG
1 GGGG
2260241 TATCGATTCT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
19 15 0.37
20 1 0.02
21 6 0.15
22 2 0.05
23 17 0.41
ACGTcount: A:0.18, C:0.24, G:0.36, T:0.22
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCCTCAA
Found at i:2264105 original size:22 final size:21
Alignment explanation
Indices: 2264063--2264102 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2264053 GAGTTTATTT
*
2264063 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
2264084 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
2264103 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:2287490 original size:11 final size:11
Alignment explanation
Indices: 2287474--2287498 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2287464 AAAATTGGTC
2287474 AGACAAAAATA
1 AGACAAAAATA
2287485 AGACAAAAATA
1 AGACAAAAATA
2287496 AGA
1 AGA
2287499 TATTTCAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.08, G:0.12, T:0.08
Consensus pattern (11 bp):
AGACAAAAATA
Found at i:2289568 original size:83 final size:83
Alignment explanation
Indices: 2289469--2289634 Score: 323
Period size: 83 Copynumber: 2.0 Consensus size: 83
2289459 ATACACTAAC
*
2289469 AAATAGAAAATAAAATAATTGTACGTGCAAACGTTGATTTGGTATTTTTATTATTGTGACTTATG
1 AAATAGAAAATAAAATAATTGTACGTACAAACGTTGATTTGGTATTTTTATTATTGTGACTTATG
2289534 CTTATTACATTTATTTAA
66 CTTATTACATTTATTTAA
2289552 AAATAGAAAATAAAATAATTGTACGTACAAACGTTGATTTGGTATTTTTATTATTGTGACTTATG
1 AAATAGAAAATAAAATAATTGTACGTACAAACGTTGATTTGGTATTTTTATTATTGTGACTTATG
2289617 CTTATTACATTTATTTAA
66 CTTATTACATTTATTTAA
2289635 CCCGAATTAA
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 82 1.00
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (83 bp):
AAATAGAAAATAAAATAATTGTACGTACAAACGTTGATTTGGTATTTTTATTATTGTGACTTATG
CTTATTACATTTATTTAA
Found at i:2292106 original size:23 final size:20
Alignment explanation
Indices: 2292061--2292106 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 20
2292051 AATTTATTAG
*
2292061 TATAATTTTAAGAAAATATT
1 TATAATTTTAAAAAAATATT
2292081 TATAATTTTATAAATAAGATATT
1 TATAATTTTA-AAA-AA-ATATT
2292104 TAT
1 TAT
2292107 TTACTTAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 10 0.45
21 2 0.09
22 2 0.09
23 8 0.36
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (20 bp):
TATAATTTTAAAAAAATATT
Found at i:2293828 original size:3 final size:3
Alignment explanation
Indices: 2293820--2293909 Score: 162
Period size: 3 Copynumber: 30.0 Consensus size: 3
2293810 ATATTTTATT
* *
2293820 TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2293868 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2293910 CAACAACAAC
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 83 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:2294219 original size:46 final size:46
Alignment explanation
Indices: 2294093--2294488 Score: 609
Period size: 46 Copynumber: 8.6 Consensus size: 46
2294083 CGAAGGCTTT
* * *
2294093 AACATCTTGCACTGAAGGTCTTACAGATGACCCGAAGG-CTTTGAA
1 AACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTGAA
* *
2294138 AATATCATGCACTGAAGGGATTACAGATGACCCCGAAGGTTTTTGAA
1 AACATCATGCACTGAAGGGCTTACAGATGA-CCCGAAGGTTTTTGAA
*
2294185 AACATCATGCACTGAAGGGCTTATAGAT-ATCCCGAAGGTTTTTGAA
1 AACATCATGCACTGAAGGGCTTACAGATGA-CCCGAAGGTTTTTGAA
* *
2294231 AACATCATGCACTGAATGGCTTACAGATGACTCGAAGGTTTTTGAA
1 AACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTGAA
* *
2294277 AACATCATGCACTGAACGACTTACAGATGACCCGAAGGTTTTTGAA
1 AACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTGAA
*
2294323 AACATCATGTACTGAAGGGCTTACAGATGACCCGAAGGTTTTTGAA
1 AACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTGAA
* * *
2294369 AACATCGTGCACTGTAGGACTTACAGATGACCCGAAGGTTTTTGAA
1 AACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTGAA
* *
2294415 AACATCATGCACTGTAGGGCTTACAGATGACTCGAAGG-TTTTGAA
1 AACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTGAA
2294460 AACATCATGCACTGAAGGGCTTACAGATG
1 AACATCATGCACTGAAGGGCTTACAGATG
2294489 TGGGAAATAG
Statistics
Matches: 322, Mismatches: 26, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
45 61 0.19
46 229 0.71
47 32 0.10
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (46 bp):
AACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTGAA
Found at i:2295190 original size:22 final size:22
Alignment explanation
Indices: 2295138--2295191 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
2295128 AAAGCTTTCG
*
2295138 TCTTTGAAAAGAGAATCTATCA
1 TCTTTGAAGAGAGAATCTATCA
2295160 TCTTTGAAGAGAGAATCTATCA
1 TCTTTGAAGAGAGAATCTATCA
2295182 TCTTTGAAGA
1 TCTTTGAAGA
2295192 ATGTAGATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (22 bp):
TCTTTGAAGAGAGAATCTATCA
Found at i:2296019 original size:18 final size:18
Alignment explanation
Indices: 2295996--2296033 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
2295986 GTAACAACGG
2295996 AAATAAGGATAAAATTCA
1 AAATAAGGATAAAATTCA
2296014 AAATAAGGATAAAATTCA
1 AAATAAGGATAAAATTCA
2296032 AA
1 AA
2296034 CAAGAACTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.63, C:0.05, G:0.11, T:0.21
Consensus pattern (18 bp):
AAATAAGGATAAAATTCA
Found at i:2304382 original size:23 final size:23
Alignment explanation
Indices: 2304356--2304400 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2304346 CACCACAGCT
*
2304356 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
2304379 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
2304401 ATATAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:2304649 original size:149 final size:149
Alignment explanation
Indices: 2304379--2304682 Score: 590
Period size: 149 Copynumber: 2.0 Consensus size: 149
2304369 CGAAGTGCCC
2304379 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
2304444 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
66 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
2304509 CATATGTCCTAAAGAACCG
131 CATATGTCCTAAAGAACCG
*
2304528 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
2304593 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
66 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
*
2304658 TATATGTCCTAAAGAACCG
131 CATATGTCCTAAAGAACCG
2304677 CGTAGA
1 CGTAGA
2304683 CCCTCTACCC
Statistics
Matches: 153, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 153 1.00
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.28
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
CATATGTCCTAAAGAACCG
Found at i:2304930 original size:34 final size:29
Alignment explanation
Indices: 2304851--2304922 Score: 126
Period size: 29 Copynumber: 2.5 Consensus size: 29
2304841 TTTTCTGCAT
*
2304851 ATTCATGTCATGTAATACATATAATATGA
1 ATTCATGTCATGTAATACATATAATATAA
*
2304880 ATTCATGTCATGTAATACATTTAATATAA
1 ATTCATGTCATGTAATACATATAATATAA
2304909 ATTCATGTCATGTA
1 ATTCATGTCATGTA
2304923 TCATAATATG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.40
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAATATAA
Found at i:2305215 original size:17 final size:16
Alignment explanation
Indices: 2305190--2305225 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
2305180 TATAGCTTAG
2305190 TCTTGCTTTCTTTTCTT
1 TCTTGCTTTCTTTT-TT
*
2305207 TCTTTCTTTCTTTTTT
1 TCTTGCTTTCTTTTTT
2305223 TCT
1 TCT
2305226 CATGGGGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.00, C:0.22, G:0.03, T:0.75
Consensus pattern (16 bp):
TCTTGCTTTCTTTTTT
Found at i:2305402 original size:67 final size:67
Alignment explanation
Indices: 2305244--2305380 Score: 222
Period size: 67 Copynumber: 2.1 Consensus size: 67
2305234 AATCGGTTCC
*
2305244 CCCCCCTGGGGGTATCGATTCCCCTCAAGCATTCTGGAATTTCATATACGATGAGGGGGTATCAG
1 CCCCCCTGGGGGTATCGATTCCCCTCAAGCATTCTGGAAATTCATATACGATGAGGGGGTATCAG
2305309 TT
66 TT
* * * *
2305311 CCCCCCTGGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCAT-TTCGTTGAGGGGGTATCGG
1 CCCCCCTGGGGGTATCGATTCCCCTCAAGCATTCTGGAAATTCATATACGATGAGGGGGTATCAG
2305375 TT
66 TT
2305377 CCCC
1 CCCC
2305381 TTGAATGGGT
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
66 22 0.34
67 43 0.66
ACGTcount: A:0.18, C:0.28, G:0.26, T:0.29
Consensus pattern (67 bp):
CCCCCCTGGGGGTATCGATTCCCCTCAAGCATTCTGGAAATTCATATACGATGAGGGGGTATCAG
TT
Found at i:2311462 original size:23 final size:23
Alignment explanation
Indices: 2311436--2311480 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2311426 CACCACAGCT
*
2311436 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
2311459 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
2311481 ATATAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:2311731 original size:149 final size:149
Alignment explanation
Indices: 2311461--2311762 Score: 586
Period size: 149 Copynumber: 2.0 Consensus size: 149
2311451 AAGTGCCCCG
2311461 TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAATCA
1 TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAATCA
2311526 TATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATACA
66 TATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATACA
2311591 TATGTCCTAAAGAACCGCA
131 TATGTCCTAAAGAACCGCA
*
2311610 TAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAATCA
1 TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAATCA
2311675 TATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATACA
66 TATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATACA
*
2311740 TATGTCCTAAAGAACCGCG
131 TATGTCCTAAAGAACCGCA
2311759 TAGA
1 TAGA
2311763 CCCTCTACCC
Statistics
Matches: 151, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 151 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.27
Consensus pattern (149 bp):
TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAATCA
TATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATACA
TATGTCCTAAAGAACCGCA
Found at i:2311877 original size:24 final size:26
Alignment explanation
Indices: 2311850--2311910 Score: 72
Period size: 30 Copynumber: 2.3 Consensus size: 26
2311840 TATCGCGTAG
2311850 ACATAGTAT-TTT-CATACCTTTATC
1 ACATAGTATATTTACATACCTTTATC
2311874 ACATAGGCATATCATTTACATACCTTTATC
1 ACATA-G--TAT-ATTTACATACCTTTATC
2311904 ACATAGT
1 ACATAGT
2311911 TCATATAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
24 5 0.16
25 1 0.03
27 4 0.13
29 4 0.13
30 17 0.55
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.39
Consensus pattern (26 bp):
ACATAGTATATTTACATACCTTTATC
Found at i:2312010 original size:34 final size:29
Alignment explanation
Indices: 2311931--2312002 Score: 126
Period size: 29 Copynumber: 2.5 Consensus size: 29
2311921 TTTTCTGCAT
*
2311931 ATTCATGTCATGTAATACATATAATATGA
1 ATTCATGTCATGTAATACATATAATATAA
*
2311960 ATTCATGTCATGTAATACATTTAATATAA
1 ATTCATGTCATGTAATACATATAATATAA
2311989 ATTCATGTCATGTA
1 ATTCATGTCATGTA
2312003 TCATAATATG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.40
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAATATAA
Found at i:2312295 original size:17 final size:16
Alignment explanation
Indices: 2312270--2312305 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
2312260 TATAGCTTAG
2312270 TCTTGCTTTCTTTTCTT
1 TCTTGCTTTCTTTT-TT
*
2312287 TCTTTCTTTCTTTTTT
1 TCTTGCTTTCTTTTTT
2312303 TCT
1 TCT
2312306 CATGGGGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.00, C:0.22, G:0.03, T:0.75
Consensus pattern (16 bp):
TCTTGCTTTCTTTTTT
Found at i:2312345 original size:19 final size:20
Alignment explanation
Indices: 2312308--2312345 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2312298 TTTTTTCTCA
*
2312308 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
2312328 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
2312346 TCAAGCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:2312444 original size:67 final size:68
Alignment explanation
Indices: 2312309--2312459 Score: 243
Period size: 68 Copynumber: 2.2 Consensus size: 68
2312299 TTTTTCTCAT
* *
2312309 GGGGGAATCGGTT-CCCCCCTGGGGGTATCGATTCCCCTCAAGCATTCTGGAATTTCATATACGA
1 GGGGGTATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCAAGCATTCTGGAAATTCATATACGA
2312373 TGA
66 TGA
* * *
2312376 GGGGGTATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCAT-TTCGT
1 GGGGGTATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCAAGCATTCTGGAAATTCATATACGA
2312440 TGA
66 TGA
2312443 GGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
2312460 TTGAATGGGT
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
67 35 0.45
68 43 0.55
ACGTcount: A:0.17, C:0.26, G:0.28, T:0.28
Consensus pattern (68 bp):
GGGGGTATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCAAGCATTCTGGAAATTCATATACGA
TGA
Found at i:2313621 original size:19 final size:19
Alignment explanation
Indices: 2313586--2313623 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
2313576 ATACTATACA
2313586 AATAAATATTATGAAAAAT
1 AATAAATATTATGAAAAAT
*
2313605 AATAAGTATATAT-AAAAAT
1 AATAAATAT-TATGAAAAAT
2313624 TTTGAAAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (19 bp):
AATAAATATTATGAAAAAT
Found at i:2314788 original size:10 final size:10
Alignment explanation
Indices: 2314773--2314801 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
2314763 TTGGGATCAA
2314773 AATAAAATTT
1 AATAAAATTT
2314783 AATAAAATTT
1 AATAAAATTT
2314793 AATAAAATT
1 AATAAAATT
2314802 ATGAGAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
AATAAAATTT
Found at i:2315901 original size:3 final size:3
Alignment explanation
Indices: 2315880--2315915 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
2315870 AATATTTATT
* *
2315880 TAA TAA TAT TAA TAT TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2315916 CAATTTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:2317001 original size:20 final size:21
Alignment explanation
Indices: 2316970--2317009 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
2316960 TATTACAGGT
2316970 ACAAATATGACAAAACCGGTC
1 ACAAATATGACAAAACCGGTC
2316991 ACAAA-ATGACAAAACCGGT
1 ACAAATATGACAAAACCGGT
2317010 AAAACGCTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.50, C:0.23, G:0.15, T:0.12
Consensus pattern (21 bp):
ACAAATATGACAAAACCGGTC
Found at i:2317292 original size:182 final size:183
Alignment explanation
Indices: 2317079--2317788 Score: 1030
Period size: 182 Copynumber: 3.9 Consensus size: 183
2317069 GAAATTAAAC
*
2317079 TAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAATAATATAACAGGTAAAAATATGAT
1 TAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGAT
**
2317144 AAAACTTGTCCCAAAAATGACAAAACC-GGAAAAAGTTACCGGATATATTGAAAGTGTCGATAAT
66 AAAACAGGTCCCAAAAATGACAAAACCAGGAAAAAGTTACCGGATATATTGAAAGTGTCGATAAT
*
2317208 TTAATATTAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCT
131 TTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCT
* *
2317261 TAAAAAGTGTCGACACTTTATTAAAATGTATCGAT-CATTACCAATATAACAGGTAAAAATATGA
1 TAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCA-TAACAATATAACAGGTAAAAATATGA
** * *
2317325 TAAAACAGGTCTAAAAAATGACAAAACC-GGAAAAAGTTACCGGATATGTTAAAAGTGTCGATAA
65 TAAAACAGGTCCCAAAAATGACAAAACCAGGAAAAAGTTACCGGATATATTGAAAGTGTCGATAA
* * *
2317389 TTTAATATAAGTATCTACACTTTCTGAATTTAAAAGAGAAAAAGTTATTGCGCT
130 TTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCT
*
2317443 TAAAAAGTGTCGACACTTTATGAAAATGTATCGATCAATAACAATATAACAGGTAAAAATATGAT
1 TAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGAT
* ** * * *
2317508 AAAACAGGTCTCAAAAATGACAAAACCAGTCAAACGCTATCGGATATATTGAAAGTGTCGATAAT
66 AAAACAGGTCCCAAAAATGACAAAACCAGGAAAAAGTTACCGGATATATTGAAAGTGTCGATAAT
* * * *
2317573 TTAATATAAGTATCGAAACTTTTTTAATTTAAAAGAGAAGAAGTTATAGCGCC
131 TTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCT
* * ** * * * *
2317626 TATAAAGTGTCGATACTTTAAAAAAATATATCAATCCACAACAATATAACAAGTAAAAATATGAT
1 TAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGAT
* * * * * * *
2317691 AAAACATGTCCCAAAATTAACAAAACCAGTAAAACGATACCGGATATGTTGAAAGTGTCGATAAT
66 AAAACAGGTCCCAAAAATGACAAAACCAGGAAAAAGTTACCGGATATATTGAAAGTGTCGATAAT
*
2317756 TTAATATAAGTATCGACACTTTCTGAAATTAAA
131 TTAATATAAGTATCGACACTTTCTGAATTTAAA
2317789 CTAAAAAGTG
Statistics
Matches: 473, Mismatches: 52, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
181 2 0.00
182 252 0.53
183 219 0.46
ACGTcount: A:0.45, C:0.13, G:0.14, T:0.28
Consensus pattern (183 bp):
TAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGAT
AAAACAGGTCCCAAAAATGACAAAACCAGGAAAAAGTTACCGGATATATTGAAAGTGTCGATAAT
TTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCT
Found at i:2317880 original size:164 final size:164
Alignment explanation
Indices: 2317629--2318278 Score: 606
Period size: 182 Copynumber: 3.8 Consensus size: 164
2317619 TAGCGCCTAT
* * * * * *
2317629 AAAGTGTCGATACTTTAAAAAAATATATCAATCCACAACAATATAACAAGTAAAAATATGATAAA
1 AAAGTGTCGACACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
* * * * * *
2317694 ACATGTCCCAAAATTAACAAAACCAGTAAAACGATACCGGATATGTTGAAAGTGTCGATAATTTA
66 ACATGTCTCAAAAATGACAAAACC-GGAAAAAGTTACCGGATATGTTGAAAGTGTCGATAATTTA
2317759 ATATAAGTATCGACACTTTCTGAAATTAAAC-TAA
130 ATATAAGTATCGACACTTTCTGAAATTAAACTTAA
* * *
2317793 AAAGTGTCGACACTTTATGAAAATGTATCGATCCATAATAATATAGCAGGTAAAAATATGATAAA
1 AAAGTGTCGACACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
* * * *
2317858 ACTTGTCTAAAAAATGACAAAACCGGAAAAAGTTACCGAATATATTGAAAGTGTCGATAATTTAA
66 ACATGTCTCAAAAATGACAAAACCGGAAAAAGTTACCGGATATGTTGAAAGTGTCGATAATTTAA
* *
2317923 TATTAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCTTAA
131 TATAAGTATCGACACTTTC------T------G-A-AA-TTA-A--ACTTAA
* *
2317975 AAAGTGTCGACACTTTATTAAAATGTATCGAT-CATTACCAATATAACAGGTAAAAATATGATAA
1 AAAGTGTCGACACTTTATAAAAATGTATCGATCCA-TAACAATATAACAGGTAAAAATATGATAA
2318039 AACATGTCTCAAAAATGACAAAACCGGAAAAAGTTACCGGATATGTTGAAAGTGTCGATAATTTA
65 AACATGTCTCAAAAATGACAAAACCGGAAAAAGTTACCGGATATGTTGAAAGTGTCGATAATTTA
*
2318104 ATATAAGTATCGACACTTTCTGAATTTAAAGAGAAGAAGTTATAGCGCTTAA
130 ATATAAGTATCGACACTTTC------T-----G-A-AA-TTA-A--ACTTAA
* * * * *
2318156 AAAGTGTTGACACTTTATGAAAATGTATCGATCCAAAATAATATAACATGTAAAAATATGATAAA
1 AAAGTGTCGACACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
** * * * *
2318221 ACCGGTCTC-AAAATGACAAAATCGGTAAATAGATACCGGATATG-TAACAAGTGTCGAT
66 ACATGTCTCAAAAATGACAAAACCGG-AAAAAGTTACCGGATATGTTGA-AAGTGTCGAT
2318279 CCCAAAAACA
Statistics
Matches: 421, Mismatches: 42, Indels: 29
0.86 0.09 0.06
Matches are distributed among these distances:
163 54 0.13
164 75 0.18
169 1 0.00
175 1 0.00
176 1 0.00
177 2 0.00
178 3 0.01
179 1 0.00
180 17 0.04
181 117 0.28
182 149 0.35
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (164 bp):
AAAGTGTCGACACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
ACATGTCTCAAAAATGACAAAACCGGAAAAAGTTACCGGATATGTTGAAAGTGTCGATAATTTAA
TATAAGTATCGACACTTTCTGAAATTAAACTTAA
Found at i:2317940 original size:529 final size:526
Alignment explanation
Indices: 2317261--2318278 Score: 1565
Period size: 529 Copynumber: 1.9 Consensus size: 526
2317251 TTATAGCGCT
* *
2317261 TAAAAAGTGTCGACACTTTATTAAAATGTATCGATCATTACCAATATAACAGGTAAAAATATGAT
1 TAAAAAGTGTCGACACTTTATGAAAATGTATCGATCATTAACAATATAACAGGTAAAAATATGAT
* *
2317326 AAAACAGGTCTAAAAAATGACAAAACCGGAAAAAGTTACCGGATATGTTAAAAGTGTCGATAATT
66 AAAACAGGTCTAAAAAATGACAAAACCGGAAAAAGTTACCGAATATATTAAAAGTGTCGATAATT
* *
2317391 TAATATAAGTATCTACACTTTCTGAATTTAAAAGAGAAAAAGTTATTGCGCTTAAAAAGTGTCGA
131 TAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAAAAGTTATAGCGCTTAAAAAGTGTCGA
2317456 CACTTTATGAAAATGTATCGATCAATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCA
196 CACTTTATGAAAATGTATCGATCAATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCA
** * *
2317521 AAAATGACAAAACCAGTCAAACGCTATCGGATATATTGAAAGTGTCGATAATTTAATATAAGTAT
261 AAAATGACAAAACC-GGAAAAAGCTACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTAT
* * * *
2317586 CGAAACTTTTTTAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAA
325 CGAAACTTTCTGAATTT-AAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTAAAAAA
* *
2317651 ATATATCAATCCACAACAATATAACAAGTAAAAATATGATAAAACATGTCCCAAAATTAACAAAA
389 ATATATCAATCCAAAACAATATAACAAGTAAAAATATGATAAAACAGGTCCCAAAA-TAACAAAA
*
2317716 CCAGTAAA-ACGATACCGGATATGTTGA-AAGTGTCGATAATTTAATATAAGTATCGACACTTTC
453 CCAGTAAATA-GATACCGGATATG-TAACAAGTGTCGATAATTTAATATAAGTATCGACACTTTC
2317779 TGAAATTAAAC
516 TGAAATTAAAC
* *
2317790 TAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCA-TAATAATATAGCAGGTAAAAATATGA
1 TAAAAAGTGTCGACACTTTATGAAAATGTATCGAT-CATTAACAATATAACAGGTAAAAATATGA
** *
2317854 TAAAACTTGTCTAAAAAATGACAAAACCGGAAAAAGTTACCGAATATATTGAAAGTGTCGATAAT
65 TAAAACAGGTCTAAAAAATGACAAAACCGGAAAAAGTTACCGAATATATTAAAAGTGTCGATAAT
* *
2317919 TTAATATTAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCTTAAAAAGTGTCG
130 TTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAAAAGTTATAGCGCTTAAAAAGTGTCG
* * * *
2317984 ACACTTTATTAAAATGTATCGATCATTACCAATATAACAGGTAAAAATATGATAAAACATGTCTC
195 ACACTTTATGAAAATGTATCGATCAATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTC
* *
2318049 AAAAATGACAAAACCGGAAAAAGTTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTAT
260 AAAAATGACAAAACCGGAAAAAGCTACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTAT
* * * **
2318114 CGACACTTTCTGAATTTAAAGAGAAGAAGTTATAGCGCTTAAAAAGTGTTGACACTTTATGAAAA
325 CGAAACTTTCTGAATTTAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTAAAAAAA
* * * * * * * *
2318179 TGTATCGATCCAAAATAATATAACATGTAAAAATATGATAAAACCGGTCTCAAAATGACAAAATC
390 TATATCAATCCAAAACAATATAACAAGTAAAAATATGATAAAACAGGTCCCAAAATAACAAAACC
*
2318244 GGTAAATAGATACCGGATATGTAACAAGTGTCGAT
455 AGTAAATAGATACCGGATATGTAACAAGTGTCGAT
2318279 CCCAAAAACA
Statistics
Matches: 442, Mismatches: 44, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
525 2 0.00
526 36 0.08
527 90 0.20
528 58 0.13
529 254 0.57
530 2 0.00
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.28
Consensus pattern (526 bp):
TAAAAAGTGTCGACACTTTATGAAAATGTATCGATCATTAACAATATAACAGGTAAAAATATGAT
AAAACAGGTCTAAAAAATGACAAAACCGGAAAAAGTTACCGAATATATTAAAAGTGTCGATAATT
TAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAAAAGTTATAGCGCTTAAAAAGTGTCGA
CACTTTATGAAAATGTATCGATCAATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCA
AAAATGACAAAACCGGAAAAAGCTACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTATC
GAAACTTTCTGAATTTAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTAAAAAAAT
ATATCAATCCAAAACAATATAACAAGTAAAAATATGATAAAACAGGTCCCAAAATAACAAAACCA
GTAAATAGATACCGGATATGTAACAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAAA
TTAAAC
Found at i:2318231 original size:181 final size:182
Alignment explanation
Indices: 2317790--2318278 Score: 761
Period size: 182 Copynumber: 2.7 Consensus size: 182
2317780 GAAATTAAAC
*
2317790 TAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAATAATATAGCAGGTAAAAATATGAT
1 TAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAATAATATAACAGGTAAAAATATGAT
* * * *
2317855 AAAACTTGTCTAAAAAATGACAAAACCGGAAAAAGTTACCGAATATATTGAAAGTGTCGATAATT
66 AAAACATGTCTCAAAAATGACAAAACCGGAAAAAGTTACCGGATATGTTGAAAGTGTCGATAATT
*
2317920 TAATATTAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCT
131 TAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCT
* **
2317972 TAAAAAGTGTCGACACTTTATTAAAATGTATCGAT-CATTACCAATATAACAGGTAAAAATATGA
1 TAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCA-TAATAATATAACAGGTAAAAATATGA
2318036 TAAAACATGTCTCAAAAATGACAAAACCGGAAAAAGTTACCGGATATGTTGAAAGTGTCGATAAT
65 TAAAACATGTCTCAAAAATGACAAAACCGGAAAAAGTTACCGGATATGTTGAAAGTGTCGATAAT
2318101 TTAATATAAGTATCGACACTTTCTGAATTT-AAAGAGAAGAAGTTATAGCGCT
130 TTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCT
* * *
2318153 TAAAAAGTGTTGACACTTTATGAAAATGTATCGATCCAAAATAATATAACATGTAAAAATATGAT
1 TAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAATAATATAACAGGTAAAAATATGAT
** * * * *
2318218 AAAACCGGTCTC-AAAATGACAAAATCGGTAAATAGATACCGGATATG-TAACAAGTGTCGAT
66 AAAACATGTCTCAAAAATGACAAAACCGG-AAAAAGTTACCGGATATGTTGA-AAGTGTCGAT
2318279 CCCAAAAACA
Statistics
Matches: 282, Mismatches: 21, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
180 17 0.06
181 116 0.41
182 149 0.53
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (182 bp):
TAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAATAATATAACAGGTAAAAATATGAT
AAAACATGTCTCAAAAATGACAAAACCGGAAAAAGTTACCGGATATGTTGAAAGTGTCGATAATT
TAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCT
Found at i:2319304 original size:198 final size:196
Alignment explanation
Indices: 2318748--2319452 Score: 693
Period size: 198 Copynumber: 3.5 Consensus size: 196
2318738 ATACATATGT
* * * *
2318748 AAGAAT-ATGTGTCGATACATTTTCAAAA-AGTATC-AACTCCAAAAACATCGAAACAAATAATT
1 AAGAATAAAGTGTCGATACA-TTT-AAAATTGTATCGATC-CCAAAAACATCGAAACGAATAATT
** * * * * * * * * * *
2318810 ATAATGTAATATTTAAATTAACAATGTCACCCG-TATACATATACCGGTTAATTATAAAACATGT
63 ATAATGTAATAGGTAAATTTACAATGTAACCCGTTATAAATATACAGTTTTATGAGAAAATAGGT
* * * *
2318874 C-AACATGAAGTATCGACACTTTTTAAGTTTGTGTCGATACTTTTTTCCA-AAAGAAAGCACAAA
128 CTAA-AT-AAGTATCGACACTTTAT-AGTTTGTGTCGATACTTTTTTCCATAATGAATGC-CCAA
*
2318937 C-AGGTTC
189 CGAGGTGC
* *
2318944 ACA-CATAAAGTGTCGATACATTTAAAATTGTATCGATCACAAAAACATCGAAACCG-ATAATTA
1 A-AGAATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAA-CGAATAATTA
* * * *
2319007 TAATGTAATAGGTCAATTTACAATGTAACCGGTT-TAAATTTACCGGTTTTATGAGAAAATAGGT
64 TAATGTAATAGGTAAATTTACAATGTAACCCGTTATAAATATA-CAGTTTTATGAGAAAATAGGT
* * * *
2319071 -TAGAATAAAGTATCAACACTTGTGTAATTTGTGTCGATACATTTTGTCCATAATGAATGCCCAA
128 CTA-AAT-AAGTATCGACACTT-TATAGTTTGTGTCGATAC-TTTTTTCCATAATGAATGCCCAA
2319135 CGAGGTGC
189 CGAGGTGC
* * *
2319143 AAGAATAATGTATCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACGAA-AATTACA
1 AAGAATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACGAATAATTATA
*
2319207 ATGTTATAGGTAAATTTACAATGT-ACCCGTTATAAATATACTAGTTTTATGAGAAAATAGGTCT
66 ATGTAATAGGTAAATTTACAATGTAACCCGTTATAAATATAC-AGTTTTATGAGAAAATAGGTCT
2319271 AAATAATGTATCGACACCTTTATAGTTTGTGTCGATACTTTTTTCCAGAATGAATTAAGAATGCC
130 AAATAA-GTATCGACA-CTTTATAGTTTGTGTCGATACTTTTTTCC---AT-AA-T--GAATGCC
2319336 CAACGAGGTGC
186 CAACGAGGTGC
* ** * * *
2319347 AAGCATAAAGTGTCGATACATTTAAAATTGTATTTATCCAAAAAACAACGAAACCAATAATTATA
1 AAGAATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACGAATAATTATA
* *
2319412 ATGCAATAGGTAAATTTACAATGCT-A-CCGGTATAAATATAC
66 ATGTAATAGGTAAATTTACAATG-TAACCCGTTATAAATATAC
2319453 CGGTTAAATA
Statistics
Matches: 424, Mismatches: 56, Indels: 49
0.80 0.11 0.09
Matches are distributed among these distances:
195 4 0.01
196 64 0.15
197 77 0.18
198 99 0.23
199 65 0.15
200 2 0.00
201 2 0.00
202 1 0.00
204 67 0.16
205 41 0.10
206 2 0.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (196 bp):
AAGAATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACGAATAATTATA
ATGTAATAGGTAAATTTACAATGTAACCCGTTATAAATATACAGTTTTATGAGAAAATAGGTCTA
AATAAGTATCGACACTTTATAGTTTGTGTCGATACTTTTTTCCATAATGAATGCCCAACGAGGTG
C
Found at i:2319489 original size:23 final size:23
Alignment explanation
Indices: 2319461--2319521 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
2319451 ACCGGTTAAA
*
2319461 TACCTATTTTATTATATAAGCGT
1 TACCTATTATATTATATAAGCGT
2319484 TACCTATTATATTATATAAGCGT
1 TACCTATTATATTATATAAGCGT
* *
2319507 TACCTAATATGTTAT
1 TACCTATTATATTAT
2319522 TATGCTTGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (23 bp):
TACCTATTATATTATATAAGCGT
Found at i:2319921 original size:19 final size:20
Alignment explanation
Indices: 2319899--2319937 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
2319889 TATATATATA
2319899 TTTT-TTATTAAAAATTTAT
1 TTTTATTATTAAAAATTTAT
* *
2319918 TTTTATTTTTAAAATTTTAT
1 TTTTATTATTAAAAATTTAT
2319938 AAATTTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTATTATTAAAAATTTAT
Found at i:2319943 original size:24 final size:24
Alignment explanation
Indices: 2319916--2319969 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
2319906 TTAAAAATTT
* *
2319916 ATTTTTATTTTTAAAATTTTATAA
1 ATTTATATTTTTAAAATTTTAGAA
*
2319940 ATTTATATTTTTTAAATTTTAGAA
1 ATTTATATTTTTAAAATTTTAGAA
2319964 ATTTAT
1 ATTTAT
2319970 TTCCAATCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
ATTTATATTTTTAAAATTTTAGAA
Found at i:2320260 original size:14 final size:14
Alignment explanation
Indices: 2320224--2320273 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
2320214 AATTTTCAAA
*
2320224 TATTAAAATAAT-T
1 TATTAAAATATTAT
**
2320237 TATTTCAATATTAT
1 TATTAAAATATTAT
2320251 TATTAAAATATTA-
1 TATTAAAATATTAT
2320264 TATCTAAAAT
1 TAT-TAAAAT
2320274 TTTAAATAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
13 12 0.40
14 18 0.60
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (14 bp):
TATTAAAATATTAT
Found at i:2320307 original size:30 final size:28
Alignment explanation
Indices: 2320272--2320338 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
2320262 TATATCTAAA
2320272 ATTTTAAATAAAAATAAAAAATATTATTAT
1 ATTTT-AATAAAAAT-AAAAATATTATTAT
* *
2320302 ATTTTATTTAAAATAAAAATATTA-TAT
1 ATTTTAATAAAAATAAAAATATTATTAT
*
2320329 -TTATAATAAA
1 ATTTTAATAAA
2320339 TATTTATTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
26 7 0.22
27 3 0.09
28 10 0.31
29 7 0.22
30 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (28 bp):
ATTTTAATAAAAATAAAAATATTATTAT
Found at i:2320329 original size:20 final size:20
Alignment explanation
Indices: 2320300--2320366 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
2320290 AAATATTATT
*
2320300 ATATTTTATTTAAAATAAAA
1 ATATTATATTTAAAATAAAA
*
2320320 ATATTATATTTATAAT--AA
1 ATATTATATTTAAAATAAAA
2320338 ATATT-TA-TTAAAATAAAA
1 ATATTATATTTAAAATAAAA
*
2320356 AAATATATATT
1 ATAT-TATATT
2320367 ATTAAGTATA
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
16 6 0.16
17 2 0.05
18 12 0.32
19 1 0.03
20 16 0.42
21 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATATTATATTTAAAATAAAA
Found at i:2320378 original size:36 final size:35
Alignment explanation
Indices: 2320277--2320383 Score: 96
Period size: 36 Copynumber: 3.0 Consensus size: 35
2320267 CTAAAATTTT
* *
2320277 AAATAAAAATAAAAAATATTATT-ATAT-TTTATTTA
1 AAATAAAAA-AATATATATTATTAATATATTTA-TTA
*
2320312 AAATAAAAATAT-TATATT-TATAATAAATATTTATTA
1 AAATAAAAAAATATATATTAT-TAAT--ATATTTATTA
*
2320348 AAATAAAAAAATATATATTATTAAGTATATTAATTA
1 AAATAAAAAAATATATATTATTAA-TATATTTATTA
2320384 CTTATTAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
32 1 0.02
33 6 0.10
34 3 0.05
35 9 0.15
36 25 0.42
37 13 0.22
38 2 0.03
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (35 bp):
AAATAAAAAAATATATATTATTAATATATTTATTA
Found at i:2323179 original size:21 final size:21
Alignment explanation
Indices: 2323131--2323180 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
2323121 TCGGGTCGGG
*
2323131 TCGGGTCGGAACCCGTCGGAT
1 TCGGGTTGGAACCCGTCGGAT
2323152 TCGGGTTGGAACCCGTCGGAT
1 TCGGGTTGGAACCCGTCGGAT
2323173 TCGGGTTG
1 TCGGGTTG
2323181 AGTTGCCATC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.12, C:0.24, G:0.40, T:0.24
Consensus pattern (21 bp):
TCGGGTTGGAACCCGTCGGAT
Found at i:2323974 original size:2 final size:2
Alignment explanation
Indices: 2323969--2324008 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
2323959 AAATAATGTG
2323969 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2324009 ATTATTAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2324208 original size:29 final size:29
Alignment explanation
Indices: 2324166--2324254 Score: 169
Period size: 29 Copynumber: 3.1 Consensus size: 29
2324156 ATACAGTGGT
2324166 CTTGGAGGTCGCCATGGCATCCGGGCGAC
1 CTTGGAGGTCGCCATGGCATCCGGGCGAC
*
2324195 CTTGGAGGTCGCCATGGCATTCGGGCGAC
1 CTTGGAGGTCGCCATGGCATCCGGGCGAC
2324224 CTTGGAGGTCGCCATGGCATCCGGGCGAC
1 CTTGGAGGTCGCCATGGCATCCGGGCGAC
2324253 CT
1 CT
2324255 GTGTGTATTT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 58 1.00
ACGTcount: A:0.13, C:0.30, G:0.37, T:0.19
Consensus pattern (29 bp):
CTTGGAGGTCGCCATGGCATCCGGGCGAC
Found at i:2324331 original size:33 final size:33
Alignment explanation
Indices: 2324294--2324407 Score: 153
Period size: 33 Copynumber: 3.5 Consensus size: 33
2324284 ATGCAATCAA
2324294 CATGGGACGTGGGAATGCATGGGGGAGGGGATG
1 CATGGGACGTGGGAATGCATGGGGGAGGGGATG
* *
2324327 CATGGGACGTGGGAATGCAT-GGGGTGGGAATG
1 CATGGGACGTGGGAATGCATGGGGGAGGGGATG
2324359 CATGGG--GTGGGAATGCATGGGGGAGGGGATGGTG
1 CATGGGACGTGGGAATGCATGGGGGAGGGGA---TG
*
2324393 CATTGGACGTGGGAA
1 CATGGGACGTGGGAA
2324408 AACCTTCCTC
Statistics
Matches: 70, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
30 12 0.17
31 8 0.11
32 16 0.23
33 20 0.29
34 7 0.10
36 7 0.10
ACGTcount: A:0.21, C:0.09, G:0.53, T:0.18
Consensus pattern (33 bp):
CATGGGACGTGGGAATGCATGGGGGAGGGGATG
Found at i:2324355 original size:15 final size:15
Alignment explanation
Indices: 2324302--2324380 Score: 113
Period size: 15 Copynumber: 5.1 Consensus size: 15
2324292 AACATGGGAC
2324302 GTGGGAATGCATGGGG
1 GTGGGAATGCAT-GGG
* *
2324318 GAGGGGATGCATGGG
1 GTGGGAATGCATGGG
2324333 ACGTGGGAATGCATGGG
1 --GTGGGAATGCATGGG
2324350 GTGGGAATGCATGGG
1 GTGGGAATGCATGGG
2324365 GTGGGAATGCATGGG
1 GTGGGAATGCATGGG
2324380 G
1 G
2324381 GAGGGGATGG
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
15 34 0.60
16 10 0.18
17 13 0.23
ACGTcount: A:0.20, C:0.08, G:0.54, T:0.18
Consensus pattern (15 bp):
GTGGGAATGCATGGG
Found at i:2324983 original size:21 final size:21
Alignment explanation
Indices: 2324958--2325001 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
2324948 AATCTAGTTA
2324958 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
2324979 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
2325000 AT
1 AT
2325002 ATTATATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:2325011 original size:28 final size:30
Alignment explanation
Indices: 2324978--2325040 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 30
2324968 TAGTATAAAT
*
2324978 TATTAGTTTGTTAGTTTAAG-T-TATATTA
1 TATTAGTTTATTAGTTTAAGTTATATATTA
2325006 TATTAGTTTATTAGTTTAAGTTATATATTA
1 TATTAGTTTATTAGTTTAAGTTATATATTA
2325036 TATTA
1 TATTA
2325041 TATAAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 19 0.59
29 1 0.03
30 12 0.38
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (30 bp):
TATTAGTTTATTAGTTTAAGTTATATATTA
Found at i:2325587 original size:20 final size:21
Alignment explanation
Indices: 2325543--2325587 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
2325533 AAATATTGTG
**
2325543 TTTAAAAATATTTAGTGTTGT
1 TTTAAAAATATTTAGTGTTAA
*
2325564 TTTAAAAATATTTTGT-TTAA
1 TTTAAAAATATTTAGTGTTAA
2325584 TTTA
1 TTTA
2325588 CATTGTATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.56
Consensus pattern (21 bp):
TTTAAAAATATTTAGTGTTAA
Found at i:2325876 original size:26 final size:25
Alignment explanation
Indices: 2325847--2325905 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
2325837 AAATCATATT
*
2325847 ATTATTAAATCATTAAATATCAAATC
1 ATTATTAAAT-AGTAAATATCAAATC
*
2325873 ATTAGATT-AATAGTAATTATCAAATC
1 ATT--ATTAAATAGTAAATATCAAATC
2325899 ATTATTA
1 ATTATTA
2325906 GGTTTATTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
24 3 0.11
26 19 0.68
27 3 0.11
28 3 0.11
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.41
Consensus pattern (25 bp):
ATTATTAAATAGTAAATATCAAATC
Found at i:2328183 original size:26 final size:26
Alignment explanation
Indices: 2328147--2328197 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
2328137 TGAGAGTCTA
2328147 ATGGGGAGAACGCTCGTATGGCTCGC
1 ATGGGGAGAACGCTCGTATGGCTCGC
2328173 ATGGGGAGAACGCTCGTATGGCTCG
1 ATGGGGAGAACGCTCGTATGGCTCG
2328198 TATGCATGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.20, C:0.22, G:0.39, T:0.20
Consensus pattern (26 bp):
ATGGGGAGAACGCTCGTATGGCTCGC
Found at i:2328223 original size:35 final size:35
Alignment explanation
Indices: 2328184--2328271 Score: 176
Period size: 35 Copynumber: 2.5 Consensus size: 35
2328174 TGGGGAGAAC
2328184 GCTCGTATGGCTCGTATGCATGGGGAGAACCATTG
1 GCTCGTATGGCTCGTATGCATGGGGAGAACCATTG
2328219 GCTCGTATGGCTCGTATGCATGGGGAGAACCATTG
1 GCTCGTATGGCTCGTATGCATGGGGAGAACCATTG
2328254 GCTCGTATGGCTCGTATG
1 GCTCGTATGGCTCGTATG
2328272 TCACCCCGTA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 53 1.00
ACGTcount: A:0.18, C:0.20, G:0.34, T:0.27
Consensus pattern (35 bp):
GCTCGTATGGCTCGTATGCATGGGGAGAACCATTG
Found at i:2328283 original size:12 final size:12
Alignment explanation
Indices: 2328266--2328307 Score: 75
Period size: 12 Copynumber: 3.5 Consensus size: 12
2328256 TCGTATGGCT
2328266 CGTATGTCACCC
1 CGTATGTCACCC
*
2328278 CGTATGTCAACC
1 CGTATGTCACCC
2328290 CGTATGTCACCC
1 CGTATGTCACCC
2328302 CGTATG
1 CGTATG
2328308 GCCACTTCGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.19, C:0.36, G:0.19, T:0.26
Consensus pattern (12 bp):
CGTATGTCACCC
Found at i:2328350 original size:30 final size:32
Alignment explanation
Indices: 2328316--2328381 Score: 91
Period size: 35 Copynumber: 2.0 Consensus size: 32
2328306 TGGCCACTTC
2328316 GCATGGGGAGAA-C-GCTCGTATGGCTCGTAT
1 GCATGGGGAGAACCTGCTCGTATGGCTCGTAT
2328346 GCATGGGGAGAACCATTGGCTCGTATGGCTCGTAT
1 GCATGGGGAGAACC--T-GCTCGTATGGCTCGTAT
2328381 G
1 G
2328382 TCACCCCGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
30 12 0.39
31 1 0.03
35 18 0.58
ACGTcount: A:0.20, C:0.20, G:0.36, T:0.24
Consensus pattern (32 bp):
GCATGGGGAGAACCTGCTCGTATGGCTCGTAT
Found at i:2328393 original size:12 final size:12
Alignment explanation
Indices: 2328376--2328407 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
2328366 TCGTATGGCT
*
2328376 CGTATGTCACCC
1 CGTATGTCAACC
2328388 CGTATGTCAACC
1 CGTATGTCAACC
2328400 CGTATGTC
1 CGTATGTC
2328408 GCCTGGATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.34, G:0.19, T:0.28
Consensus pattern (12 bp):
CGTATGTCAACC
Found at i:2330703 original size:14 final size:14
Alignment explanation
Indices: 2330684--2330719 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
2330674 AGCTTGATGA
* *
2330684 TGAAGAAGCTACGG
1 TGAAGAAGCTAAGC
2330698 TGAAGAAGCTAAGC
1 TGAAGAAGCTAAGC
2330712 TGAAGAAG
1 TGAAGAAG
2330720 GGCGGAAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.42, C:0.11, G:0.33, T:0.14
Consensus pattern (14 bp):
TGAAGAAGCTAAGC
Found at i:2330958 original size:21 final size:21
Alignment explanation
Indices: 2330934--2330986 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
2330924 CGTGACAGTT
*
2330934 CATGGTGTTGATGTATTGGTC
1 CATGGTGTTGATGTACTGGTC
2330955 CATGGTGTTGATGTACTGGTC
1 CATGGTGTTGATGTACTGGTC
* *
2330976 TATAGTGTTGA
1 CATGGTGTTGA
2330987 CATGACAGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.17, C:0.09, G:0.32, T:0.42
Consensus pattern (21 bp):
CATGGTGTTGATGTACTGGTC
Found at i:2331721 original size:19 final size:19
Alignment explanation
Indices: 2331697--2331734 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
2331687 TTTCTTTTAC
2331697 TTTTCTTTGT-TATTTTATT
1 TTTTCTTT-TATATTTTATT
2331716 TTTTCTTTTATATTTTATT
1 TTTTCTTTTATATTTTATT
2331735 ATAATTTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.13, C:0.05, G:0.03, T:0.79
Consensus pattern (19 bp):
TTTTCTTTTATATTTTATT
Found at i:2346690 original size:15 final size:15
Alignment explanation
Indices: 2346670--2346705 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
2346660 TAAAAAATAC
*
2346670 ATAAAACAGAAGAAA
1 ATAAAACACAAGAAA
*
2346685 ATAAAATACAAGAAA
1 ATAAAACACAAGAAA
2346700 ATAAAA
1 ATAAAA
2346706 TAATATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.75, C:0.06, G:0.08, T:0.11
Consensus pattern (15 bp):
ATAAAACACAAGAAA
Found at i:2346706 original size:15 final size:15
Alignment explanation
Indices: 2346679--2346707 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2346669 CATAAAACAG
2346679 AAGAAAATAAAATAC
1 AAGAAAATAAAATAC
2346694 AAGAAAATAAAATA
1 AAGAAAATAAAATA
2346708 ATATAAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.76, C:0.03, G:0.07, T:0.14
Consensus pattern (15 bp):
AAGAAAATAAAATAC
Found at i:2347309 original size:20 final size:20
Alignment explanation
Indices: 2347284--2347324 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
2347274 CCAATATCGA
2347284 TATCCATCATCATATGCATT
1 TATCCATCATCATATGCATT
2347304 TATCCATCATCATATGCATT
1 TATCCATCATCATATGCATT
2347324 T
1 T
2347325 GTTTATATTT
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:0.24, G:0.05, T:0.41
Consensus pattern (20 bp):
TATCCATCATCATATGCATT
Found at i:2348814 original size:38 final size:38
Alignment explanation
Indices: 2348763--2348843 Score: 153
Period size: 38 Copynumber: 2.1 Consensus size: 38
2348753 ATCAATCAAA
2348763 TGCCACTCAACAATAGCATAATAGATAAGAGGTACAAC
1 TGCCACTCAACAATAGCATAATAGATAAGAGGTACAAC
*
2348801 TGCCACTCAACAATAGCATAATATATAAGAGGTACAAC
1 TGCCACTCAACAATAGCATAATAGATAAGAGGTACAAC
2348839 TGCCA
1 TGCCA
2348844 ACCATACTTC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.43, C:0.22, G:0.15, T:0.20
Consensus pattern (38 bp):
TGCCACTCAACAATAGCATAATAGATAAGAGGTACAAC
Found at i:2363430 original size:65 final size:63
Alignment explanation
Indices: 2363309--2363518 Score: 217
Period size: 65 Copynumber: 3.3 Consensus size: 63
2363299 TTTAACAAAG
* * * * * **
2363309 TGATGCACCGATGCACCAATCCATGCATCAATGCACCATGAATTAAATTG-AACATCGAATGCAT
1 TGATGCATCGATGCA-CAA-CCATGCATCGATGCACTAAGGA-TATTTTGAAACATCGAATGCAT
2363373 T
63 T
* *
2363374 TCAGGCATCGATGCACATACCATGCATCGATGCACTAAGGAT-TTTATGAAAACATCGAATGCAT
1 TGATGCATCGATGCACA-ACCATGCATCGATGCACTAAGGATATTT-TG-AAACATCGAATGCAT
2363438 T
63 T
* * * * *
2363439 TGATGCATCGATGCACCAGCCATGCATCGATGCACTATGGCTATTTTGAAACATCAAATGCACT
1 TGATGCATCGATGCA-CAACCATGCATCGATGCACTAAGGATATTTTGAAACATCGAATGCATT
2363503 TGATGCATCGATGCAC
1 TGATGCATCGATGCAC
2363519 TCTTAGTGCA
Statistics
Matches: 123, Mismatches: 16, Indels: 14
0.80 0.10 0.09
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 49 0.40
65 64 0.52
66 5 0.04
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (63 bp):
TGATGCATCGATGCACAACCATGCATCGATGCACTAAGGATATTTTGAAACATCGAATGCATT
Found at i:2367039 original size:20 final size:20
Alignment explanation
Indices: 2367002--2367044 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2366992 AATCCACCAT
2367002 ATGCAACTACATGATCCTAA
1 ATGCAACTACATGATCCTAA
* * *
2367022 ATGCATCTATATGGTCCTAA
1 ATGCAACTACATGATCCTAA
2367042 ATG
1 ATG
2367045 TGCCTTAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGCAACTACATGATCCTAA
Found at i:2367919 original size:33 final size:32
Alignment explanation
Indices: 2367823--2367922 Score: 87
Period size: 33 Copynumber: 3.1 Consensus size: 32
2367813 TGACATAAAA
*
2367823 TTTTCAGTGATATATCACTTCATTCAAAAAC-
1 TTTTCAGTGATATATCACTTCATTTAAAAACT
* ** * * **
2367854 TTTTCACTTCCTA-ATTATTTCACTTTCGAAACT
1 TTTTCA-GTGATATATCACTTCA-TTTAAAAACT
2367887 TTTTCAGTGATATATCACTTCATTTAAAAAACT
1 TTTTCAGTGATATATCACTTCATTT-AAAAACT
2367920 TTT
1 TTT
2367923 AAAAACGATT
Statistics
Matches: 49, Mismatches: 15, Indels: 8
0.68 0.21 0.11
Matches are distributed among these distances:
31 13 0.27
32 15 0.31
33 21 0.43
ACGTcount: A:0.31, C:0.19, G:0.05, T:0.45
Consensus pattern (32 bp):
TTTTCAGTGATATATCACTTCATTTAAAAACT
Found at i:2368603 original size:21 final size:20
Alignment explanation
Indices: 2368583--2368630 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
2368573 CCAACTAAGA
2368583 ATAATGATGAAGAAACAAAG
1 ATAATGATGAAGAAACAAAG
*
2368603 AT-A-GATGATGAAACAAAG
1 ATAATGATGAAGAAACAAAG
2368621 ATAGATGATG
1 ATA-ATGATG
2368631 GAGTTTTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 16 0.67
19 1 0.04
20 3 0.12
21 4 0.17
ACGTcount: A:0.54, C:0.04, G:0.23, T:0.19
Consensus pattern (20 bp):
ATAATGATGAAGAAACAAAG
Found at i:2368615 original size:18 final size:18
Alignment explanation
Indices: 2368588--2368630 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
2368578 TAAGAATAAT
*
2368588 GATGAAGAAACAAAGATA
1 GATGATGAAACAAAGATA
2368606 GATGATGAAACAAAGATA
1 GATGATGAAACAAAGATA
2368624 GATGATG
1 GATGATG
2368631 GAGTTTTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.53, C:0.05, G:0.26, T:0.16
Consensus pattern (18 bp):
GATGATGAAACAAAGATA
Found at i:2368904 original size:36 final size:36
Alignment explanation
Indices: 2368812--2368907 Score: 113
Period size: 37 Copynumber: 2.6 Consensus size: 36
2368802 GTTTGTTGTA
*
2368812 TTTATGTCCTTAACGTAATGTGTTAAGTTCGTTATTT
1 TTTATCTCCTTAACGTAATGT-TTAAGTTCGTTATTT
* ** *
2368849 TTTATCTTCTTAATATAATGTTTATGGTTCGTTA-TT
1 TTTATCTCCTTAACGTAATGTTTA-AGTTCGTTATTT
*
2368885 TTTATCTCCTAAACGTAATGTTT
1 TTTATCTCCTTAACGTAATGTTT
2368908 TTTTGCAAAC
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
36 24 0.49
37 25 0.51
ACGTcount: A:0.23, C:0.11, G:0.12, T:0.53
Consensus pattern (36 bp):
TTTATCTCCTTAACGTAATGTTTAAGTTCGTTATTT
Found at i:2375547 original size:32 final size:32
Alignment explanation
Indices: 2375511--2375577 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
2375501 AATGGCGTTG
2375511 GCAGAATTGAAAGAGTTGATAGTTTAATTGAT
1 GCAGAATTGAAAGAGTTGATAGTTTAATTGAT
2375543 GCAGAATTGAAAGAGTTGATAGTTTAATTGAT
1 GCAGAATTGAAAGAGTTGATAGTTTAATTGAT
2375575 GCA
1 GCA
2375578 AGCATGTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.37, C:0.04, G:0.25, T:0.33
Consensus pattern (32 bp):
GCAGAATTGAAAGAGTTGATAGTTTAATTGAT
Found at i:2382080 original size:16 final size:15
Alignment explanation
Indices: 2382055--2382090 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
2382045 ACTTCACATA
*
2382055 TTTGTTTATTGAATT
1 TTTGTTTATTGAATG
2382070 TTTGATTTATTGAATG
1 TTTG-TTTATTGAATG
2382086 TTTGT
1 TTTGT
2382091 AACTGCATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.19, C:0.00, G:0.17, T:0.64
Consensus pattern (15 bp):
TTTGTTTATTGAATG
Found at i:2395778 original size:15 final size:15
Alignment explanation
Indices: 2395758--2395787 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2395748 AACCAACCAC
2395758 CCCCTTCTTCCATTT
1 CCCCTTCTTCCATTT
*
2395773 CCCCTTCTTTCATTT
1 CCCCTTCTTCCATTT
2395788 ATTGTATAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.43, G:0.00, T:0.50
Consensus pattern (15 bp):
CCCCTTCTTCCATTT
Found at i:2398831 original size:7 final size:7
Alignment explanation
Indices: 2398792--2398829 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
2398782 TTTTTTAATG
*
2398792 GGAAAGG
1 GGAAAGA
2398799 GGAAAGA
1 GGAAAGA
2398806 GGAAAGA
1 GGAAAGA
2398813 GGAAAGA
1 GGAAAGA
*
2398820 GGAGAGA
1 GGAAAGA
2398827 GGA
1 GGA
2398830 GATAAAAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (7 bp):
GGAAAGA
Found at i:2399229 original size:3 final size:3
Alignment explanation
Indices: 2399221--2399255 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
2399211 CATGTTTGAC
2399221 TCT TCT TCT TCT TGCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT T-CT TCT TCT TCT TCT TCT TCT T
2399256 GGTTGAAGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.00, C:0.31, G:0.03, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:2407263 original size:21 final size:19
Alignment explanation
Indices: 2407235--2407280 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
2407225 TCATTGAATC
2407235 ATTA-TTCTTAGCTCCTTAAT
1 ATTAGTTCTTAGCT--TTAAT
2407255 ATTAGTTCTTAGCTTTAAT
1 ATTAGTTCTTAGCTTTAAT
2407274 ACTTAGT
1 A-TTAGT
2407281 AGGATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (19 bp):
ATTAGTTCTTAGCTTTAAT
Found at i:2417595 original size:21 final size:19
Alignment explanation
Indices: 2417567--2417612 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
2417557 TCATTGAATC
2417567 ATTA-TTCTTAGCTCCTTAAT
1 ATTAGTTCTTAGCT--TTAAT
2417587 ATTAGTTCTTAGCTTTAAT
1 ATTAGTTCTTAGCTTTAAT
2417606 ACTTAGT
1 A-TTAGT
2417613 AGGATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (19 bp):
ATTAGTTCTTAGCTTTAAT
Found at i:2420066 original size:32 final size:31
Alignment explanation
Indices: 2420025--2420145 Score: 156
Period size: 32 Copynumber: 3.9 Consensus size: 31
2420015 GAGTCGAGGG
*
2420025 TTACCTATGTCTTTTGGGACATATGGACAGGA
1 TTACCTATGTCTTTCGGGACATATGGACA-GA
*
2420057 TTACCTATGTCTTTCAGGACATATGGACAAGA
1 TTACCTATGTCTTTCGGGACATATGGAC-AGA
*
2420089 TTACCTATGTCTTTCGGGGCATATGGACAG-
1 TTACCTATGTCTTTCGGGACATATGGACAGA
* *
2420119 TTACCTATGT-TCTCAGGAACATATGGA
1 TTACCTATGTCTTTC-GGGACATATGGA
2420146 TAGGTTCTTT
Statistics
Matches: 80, Mismatches: 7, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
29 3 0.04
30 20 0.25
31 2 0.03
32 54 0.68
33 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.33
Consensus pattern (31 bp):
TTACCTATGTCTTTCGGGACATATGGACAGA
Found at i:2420751 original size:21 final size:21
Alignment explanation
Indices: 2420689--2420743 Score: 110
Period size: 21 Copynumber: 2.6 Consensus size: 21
2420679 CGAAAGTTAT
2420689 TGTAGCAGTGCATTGGTACAC
1 TGTAGCAGTGCATTGGTACAC
2420710 TGTAGCAGTGCATTGGTACAC
1 TGTAGCAGTGCATTGGTACAC
2420731 TGTAGCAGTGCAT
1 TGTAGCAGTGCAT
2420744 CGATACACAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (21 bp):
TGTAGCAGTGCATTGGTACAC
Found at i:2420798 original size:21 final size:21
Alignment explanation
Indices: 2420772--2420813 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
2420762 AGATGTTTTT
*
2420772 GTGCATCGTTACACTGTAGCA
1 GTGCATCGATACACTGTAGCA
2420793 GTGCATCGATACACTGTAGCA
1 GTGCATCGATACACTGTAGCA
2420814 CAGTTCATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (21 bp):
GTGCATCGATACACTGTAGCA
Found at i:2425060 original size:2 final size:2
Alignment explanation
Indices: 2425055--2425084 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2425045 CGATCTATCC
2425055 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
2425085 GGATTATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2425346 original size:23 final size:23
Alignment explanation
Indices: 2425314--2425390 Score: 102
Period size: 23 Copynumber: 3.4 Consensus size: 23
2425304 TCAGGGGAGG
*
2425314 ATCGATCTCAAATTCGAGTTTGA
1 ATCGAGCTCAAATTCGAGTTTGA
2425337 ATCGAGCTCAAATTCGAGTTTGA
1 ATCGAGCTCAAATTCGAGTTTGA
* * *
2425360 ATAGAGTTCAAACTCGAGTTT-A
1 ATCGAGCTCAAATTCGAGTTTGA
*
2425382 ATTGAGCTC
1 ATCGAGCTC
2425391 GAGTCTAAAG
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
22 8 0.17
23 40 0.83
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.32
Consensus pattern (23 bp):
ATCGAGCTCAAATTCGAGTTTGA
Found at i:2427265 original size:2 final size:2
Alignment explanation
Indices: 2427254--2427284 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
2427244 AAAGTATTTG
2427254 AT AT -T 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
2427285 TTAATATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:2427796 original size:3 final size:3
Alignment explanation
Indices: 2427788--2427816 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2427778 GAGACTATCA
2427788 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2427817 CAAAATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:2430279 original size:7 final size:7
Alignment explanation
Indices: 2430267--2430426 Score: 192
Period size: 7 Copynumber: 23.6 Consensus size: 7
2430257 TCAGAGAAAA
2430267 AAAAGAG
1 AAAAGAG
2430274 AAAAGAAG
1 AAAAG-AG
*
2430282 AAAAGAA
1 AAAAGAG
*
2430289 AAGAAAAG
1 AA-AAGAG
2430297 AAAA-A-
1 AAAAGAG
2430302 AAAA-AG
1 AAAAGAG
2430308 -AAA-AG
1 AAAAGAG
*
2430313 AAAAGAA
1 AAAAGAG
*
2430320 AAGAAAAG
1 AA-AAGAG
2430328 AAAAGAG
1 AAAAGAG
2430335 AAAAGAG
1 AAAAGAG
2430342 AAAAGAG
1 AAAAGAG
2430349 AAAAGAG
1 AAAAGAG
2430356 AAAAGAG
1 AAAAGAG
2430363 AAAAGAG
1 AAAAGAG
2430370 AAAAGAG
1 AAAAGAG
*
2430377 AAAAAAG
1 AAAAGAG
2430384 AAAAGAG
1 AAAAGAG
2430391 AAAAGAG
1 AAAAGAG
2430398 AAAAGAG
1 AAAAGAG
2430405 AAAAGAG
1 AAAAGAG
2430412 AAAA-A-
1 AAAAGAG
2430417 AAAAGA-
1 AAAAGAG
2430423 AAAA
1 AAAA
2430427 ATTGAATCAA
Statistics
Matches: 137, Mismatches: 9, Indels: 15
0.85 0.06 0.09
Matches are distributed among these distances:
5 14 0.10
6 10 0.07
7 96 0.70
8 17 0.12
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (7 bp):
AAAAGAG
Found at i:2433346 original size:64 final size:64
Alignment explanation
Indices: 2433245--2433412 Score: 293
Period size: 64 Copynumber: 2.6 Consensus size: 64
2433235 CAAGACTTTT
2433245 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAACAAACAACTTTTCAATTTCATTC
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAACAAACAACTTTTCAATTTCATTC
*
2433309 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAACAAACAACTTTTCAGTTTCATTC
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAACAAACAACTTTTCAATTTCATTC
* * *
2433373 AGAGTCAA-TTCAACTTCACAGCGAATGATATTGAACTCAA
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAA
2433413 AGCAATACAA
Statistics
Matches: 100, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
63 29 0.29
64 71 0.71
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (64 bp):
AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAACAAACAACTTTTCAATTTCATTC
Found at i:2434047 original size:261 final size:260
Alignment explanation
Indices: 2433583--2434413 Score: 1225
Period size: 261 Copynumber: 3.2 Consensus size: 260
2433573 CAGCAATATT
* *
2433583 GGATTTCAACTTCACAACGAAAGATATCCAATTTAAAGCTCAACTTCACAGCTAAGGGGCTTCCC
1 GGATTTCAACTTCACAACGAAAGATATCCAATTCAAAGCTCAACTTCACAGCGAAGGGGCTTCCC
* **
2433648 AGTTTCATTCAGAGCTAATTTTAACTTCACGGCGAAGGATATTGGACTCGAAACAATAACAATGC
66 AGTTTCATTCAGAGCTAATTTTAACTTCACGGCGAAGGACATTGGACTCGAAACAGCAACAATGC
* * *
2433713 AACCCTTGGATTTCAAATTCACGACGAAGGATATCCAATTCTAGGCTCAACTTCACGACG-AAGG
131 AACCCTTGGATTTCAACTTCAC-AAGAAGGATATCCAATTCGAGGCTCAACTTCACGACGAAAGG
* * ** * *
2433777 GATCATCCACGATTTTAACTTCATGGCGAAGGATATCGTGTCCACCAACAACATTAATCTTTAGA
195 G-TCATCCACGATTTCAACTTCACGATGAAGGATATCGTGTCCACCAGCAACATTCATCTTTAGA
2433842 TG
259 TG
* * *
2433844 GGATTTCAACTTCACAACGAAAGATATCCAACTCAAAGCTCAACTTCACAGGGAAGGGGCTTCTC
1 GGATTTCAACTTCACAACGAAAGATATCCAATTCAAAGCTCAACTTCACAGCGAAGGGGCTTCCC
* *
2433909 AGTTTCATTCAGAGCTAATTTCAACTTCACGGCGAAGGACATTGGACTCGAAACAGCAGCAATGC
66 AGTTTCATTCAGAGCTAATTTTAACTTCACGGCGAAGGACATTGGACTCGAAACAGCAACAATGC
* * *
2433974 AACCCTTGGATTTCAACTTTACAATGAAGGATATCTAATTCGAGGCTTAACTTCACGACGAAAGG
131 AACCCTTGGATTTCAACTTCACAA-GAAGGATATCCAATTCGAGGCTCAACTTCACGACGAAAGG
* * *
2434039 GCCATCCACGATTTCAACTTCACGATGAAGGATATCGTATCCACCAGCAACATTCATTTTTAGAT
195 GTCATCCACGATTTCAACTTCACGATGAAGGATATCGTGTCCACCAGCAACATTCATCTTTAGAT
2434104 G
260 G
* * * *
2434105 GGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGTTAAACTTCACAGCGAAAGGGCTTCCC
1 GGATTTCAACTTCACAACGAAAGATATCCAATTCAAAGCTCAACTTCACAGCGAAGGGGCTTCCC
* *
2434170 AGTTTCATTCAGAGCTAATTTTAACTTCACGGTGAAGGACATTGGACTCGAAACAGCAATAATGC
66 AGTTTCATTCAGAGCTAATTTTAACTTCACGGCGAAGGACATTGGACTCGAAACAGCAACAATGC
* *
2434235 AACCCTTGGATTTCAACTTCACAACAAGGGATATCCAATTCGAGGCTCAAC-TCACGACAAAAGG
131 AACCCTTGGATTTCAACTTCACAAGAA-GGATATCCAATTCGAGGCTCAACTTCACGACGAAAGG
* * * * *
2434299 GTCATCTACAATTTCAACTTCACGATGAAGGATATCATGCCCACTAGCAACATTCATCTTTAGAT
195 GTCATCCACGATTTCAACTTCACGATGAAGGATATCGTGTCCACCAGCAACATTCATCTTTAGAT
*
2434364 T
260 G
* * * *
2434365 GGATTTTAACTTCACAACGAATGATATCCAATTCGAGGCTCAACTTCAC
1 GGATTTCAACTTCACAACGAAAGATATCCAATTCAAAGCTCAACTTCAC
2434414 GACGAAAGGG
Statistics
Matches: 511, Mismatches: 56, Indels: 7
0.89 0.10 0.01
Matches are distributed among these distances:
260 115 0.23
261 391 0.77
262 5 0.01
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.26
Consensus pattern (260 bp):
GGATTTCAACTTCACAACGAAAGATATCCAATTCAAAGCTCAACTTCACAGCGAAGGGGCTTCCC
AGTTTCATTCAGAGCTAATTTTAACTTCACGGCGAAGGACATTGGACTCGAAACAGCAACAATGC
AACCCTTGGATTTCAACTTCACAAGAAGGATATCCAATTCGAGGCTCAACTTCACGACGAAAGGG
TCATCCACGATTTCAACTTCACGATGAAGGATATCGTGTCCACCAGCAACATTCATCTTTAGATG
Found at i:2434150 original size:124 final size:123
Alignment explanation
Indices: 2433980--2434471 Score: 429
Period size: 124 Copynumber: 3.9 Consensus size: 123
2433970 ATGCAACCCT
* * * *
2433980 TGGATTTCAACTTTACAATGAAGGATATCTAATTCGAGGCTTAACTTCACGACGAAAGGGCCATC
1 TGGATTTCAACTTCACAACGAAGGATATCCAATTCGAGGCTCAACTTCACGACGAAAGGGCCATC
* *
2434045 CACGATTTCAACTTCACGATGAAGGATATCGTATCCACCAGCAACATTCATTTTTAGA
66 CACAATTTCAACTTCACGATGAAGGATATCGTATCCACCAGCAACATTCATCTTTAGA
* * * *
2434103 TGGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGTTAAACTTCAC-AGCGAAAGGGCTT
1 T-GGATTTCAACTTCACAACGAAGGATATCCAATTCGAGGCTCAACTTCACGA-CGAAAGGG---
* * * * * * * *
2434167 CCCAGTTTCATTCAGAGCTAATTTTAACTTCACGGTGAAGGACATTGGACTCGAAACAGCAATAA
61 -CCA---TC---C--A-C-AATTTCAACTTCACGATGAAGGATATCGTA-TC-CACCAGCAA-CA
* * **
2434232 TGCAACCCT---
112 TTCATCTTTAGA
* *
2434241 TGGATTTCAACTTCACAAC-AAGGGATATCCAATTCGAGGCTCAAC-TCACGACAAAAGGGTCAT
1 TGGATTTCAACTTCACAACGAA-GGATATCCAATTCGAGGCTCAACTTCACGACGAAAGGGCCAT
* * ** *
2434304 CTACAATTTCAACTTCACGATGAAGGATATCATGCCCACTAGCAACATTCATCTTTAGA
65 CCACAATTTCAACTTCACGATGAAGGATATCGTATCCACCAGCAACATTCATCTTTAGA
* *
2434363 TTGGATTTTAACTTCACAACGAATGATATCCAATTCGAGGCTCAACTTCACGACGAAAGGGCCAT
1 -TGGATTTCAACTTCACAACGAAGGATATCCAATTCGAGGCTCAACTTCACGACGAAAGGGCCAT
* * * * *
2434428 TCACTATATCAACTTCACGACGAAGGATATCGTGTCCACCAGCA
65 CCACAATTTCAACTTCACGATGAAGGATATCGTATCCACCAGCA
2434472 GTAATGCATC
Statistics
Matches: 286, Mismatches: 56, Indels: 53
0.72 0.14 0.13
Matches are distributed among these distances:
119 6 0.02
120 6 0.02
121 1 0.00
122 23 0.08
123 43 0.15
124 105 0.37
128 3 0.01
129 2 0.01
131 2 0.01
132 2 0.01
134 1 0.00
136 14 0.05
137 39 0.14
138 25 0.09
139 2 0.01
140 7 0.02
141 5 0.02
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (123 bp):
TGGATTTCAACTTCACAACGAAGGATATCCAATTCGAGGCTCAACTTCACGACGAAAGGGCCATC
CACAATTTCAACTTCACGATGAAGGATATCGTATCCACCAGCAACATTCATCTTTAGA
Found at i:2434655 original size:40 final size:40
Alignment explanation
Indices: 2434600--2434735 Score: 155
Period size: 40 Copynumber: 3.3 Consensus size: 40
2434590 TGGCCAGACG
2434600 TCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAAC
1 TCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAAC
* * ** * *** **
2434640 TCCTCATCACAAAGGAGCAACATCATTCTTAGATAGCCAGATG
1 TCCTCATCACGAAGGAACAATGTCATCCACCGAT---CAGAAC
2434683 TCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAAC
1 TCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAAC
2434723 TCCTCATCACGAA
1 TCCTCATCACGAA
2434736 TGAGCAACAT
Statistics
Matches: 73, Mismatches: 20, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
40 43 0.59
43 30 0.41
ACGTcount: A:0.35, C:0.31, G:0.15, T:0.20
Consensus pattern (40 bp):
TCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAAC
Found at i:2434689 original size:43 final size:43
Alignment explanation
Indices: 2434640--2434781 Score: 155
Period size: 43 Copynumber: 3.4 Consensus size: 43
2434630 CGATCAGAAC
* *
2434640 TCCTCATCACAAAGGAGCAACATCATTCTTAGATAGCCAGATG
1 TCCTCATCACGAAGGAGCAACATCATCCTTAGATAGCCAGATG
* ** *** **
2434683 TCCTCATCACGAAGGAACAATGTCATCCACCGAT---CAGAAC
1 TCCTCATCACGAAGGAGCAACATCATCCTTAGATAGCCAGATG
* *
2434723 TCCTCATCACGAATGAGCAACATCATCCTTAGATAGCCAAATG
1 TCCTCATCACGAAGGAGCAACATCATCCTTAGATAGCCAGATG
2434766 TCCTCATCACGAAGGA
1 TCCTCATCACGAAGGA
2434782 ATTGTGTTAT
Statistics
Matches: 75, Mismatches: 21, Indels: 6
0.74 0.21 0.06
Matches are distributed among these distances:
40 31 0.41
43 44 0.59
ACGTcount: A:0.35, C:0.29, G:0.15, T:0.21
Consensus pattern (43 bp):
TCCTCATCACGAAGGAGCAACATCATCCTTAGATAGCCAGATG
Found at i:2434731 original size:83 final size:83
Alignment explanation
Indices: 2434587--2434782 Score: 338
Period size: 83 Copynumber: 2.4 Consensus size: 83
2434577 ATATCTTTAA
* *
2434587 AGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACAA
1 AGATAGCCAGATGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACAA
*
2434652 AGGAGCAACATCATTCTT
66 AGGAGCAACATCATCCTT
*
2434670 AGATAGCCAGATGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACGA
1 AGATAGCCAGATGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACAA
*
2434735 ATGAGCAACATCATCCTT
66 AGGAGCAACATCATCCTT
*
2434753 AGATAGCCAAATGTCCTCATCACGAAGGAA
1 AGATAGCCAGATGTCCTCATCACGAAGGAA
2434783 TTGTGTTATC
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 107 1.00
ACGTcount: A:0.35, C:0.29, G:0.17, T:0.19
Consensus pattern (83 bp):
AGATAGCCAGATGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACAA
AGGAGCAACATCATCCTT
Found at i:2434920 original size:220 final size:220
Alignment explanation
Indices: 2434520--2434920 Score: 660
Period size: 220 Copynumber: 1.8 Consensus size: 220
2434510 TCGTGTCCAT
* * *
2434520 CAACCTCATTCTTAGATAGCCATATGTCCTCATCACGAAGGAACCATGTTATCTCAAATATCTTT
1 CAACATCATCCTTAGATAGCCAAATGTCCTCATCACGAAGGAACCATGTTATCTCAAATATCTTT
2434585 AAAGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCAC
66 AAAGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCAC
* * *
2434650 AAAGGAGCAACATCATTCTTAGATAGCCAGATGTCCTCATCACGAAGGAACAATGTCATCCACCG
131 AAAGGAGCAACATCATCCTTAGATAGCCAAATGTCCTCATCACAAAGGAACAATGTCATCCACCG
2434715 ATCAGAACTCCTCATCACGAATGAG
196 ATCAGAACTCCTCATCACGAATGAG
***
2434740 CAACATCATCCTTAGATAGCCAAATGTCCTCATCACGAAGGAATTGTGTTATCTCAAATATCTTT
1 CAACATCATCCTTAGATAGCCAAATGTCCTCATCACGAAGGAACCATGTTATCTCAAATATCTTT
* *
2434805 AAAGATGGTCAGACGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCAT
66 AAAGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCAC
* * *
2434870 GAATGAGCAACATCA-CCATTAGATAGCCAAATGTCCTCATTACAAAGGAAC
131 AAAGGAGCAACATCATCC-TTAGATAGCCAAATGTCCTCATCACAAAGGAAC
2434921 TGTGTTATCT
Statistics
Matches: 166, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
219 1 0.01
220 165 0.99
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.23
Consensus pattern (220 bp):
CAACATCATCCTTAGATAGCCAAATGTCCTCATCACGAAGGAACCATGTTATCTCAAATATCTTT
AAAGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCAC
AAAGGAGCAACATCATCCTTAGATAGCCAAATGTCCTCATCACAAAGGAACAATGTCATCCACCG
ATCAGAACTCCTCATCACGAATGAG
Found at i:2434928 original size:137 final size:137
Alignment explanation
Indices: 2434670--2435392 Score: 1092
Period size: 137 Copynumber: 5.3 Consensus size: 137
2434660 CATCATTCTT
* *
2434670 AGATAGCCAGATGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACGA
1 AGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACGA
* * *
2434735 ATGAGCAACATCATCCTTAGATAGCCAAATGTCCTCATCACGAAGGAATTGTGTTATCTCAAATA
66 ATGAGCAACATCATTCTTAGATAGCCAGATGTCCTCATCACGAAGGAACTGTGTTATCTCAAATA
2434800 TCTTTAA
131 TCTTTAA
* *
2434807 AGATGGTCAGACGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCATGA
1 AGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACGA
* * * *
2434872 ATGAGCAACATCA-CCATTAGATAGCCAAATGTCCTCATTACAAAGGAACTGTGTTATCTCAAAT
66 ATGAGCAACATCATTC-TTAGATAGCCAGATGTCCTCATCACGAAGGAACTGTGTTATCTCAAAT
2434936 ATCTTTAA
130 ATCTTTAA
** * **
2434944 AGATGGCCAGGTGTCCTCATCACGAAGGAACAATATCATCCACC-ATTCAGAACTCCTCATCAAA
1 AGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCCACCGA-TCAGAACTCCTCATCACG
* * * *
2435008 AAGGAGCAACATCATTTTTAGATAGCCAGATGTCCTCATCACGAAGGAACCGTATTATCTCAAAT
65 AATGAGCAACATCATTCTTAGATAGCCAGATGTCCTCATCACGAAGGAACTGTGTTATCTCAAAT
2435073 ATCTTTAA
130 ATCTTTAA
* * *
2435081 AGATGTCCATACGTCCTCATCACGAAGGAACAATGTCATCCACTGATCAGAACTCCTCATCACGA
1 AGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACGA
* *
2435146 ATGAGCAACATCATTCTTAGATAGCCAGATGTCCTAATCACGAAGGATCTGTGTTATCTCAAATA
66 ATGAGCAACATCATTCTTAGATAGCCAGATGTCCTCATCACGAAGGAACTGTGTTATCTCAAATA
2435211 TCTTTAA
131 TCTTTAA
* *
2435218 AGATGGCCAGACATCCTCATCACGAAGGAACAATGTCATCCACCAATCAGAACTCCTCATCACGA
1 AGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACGA
* * * **
2435283 AGGAGCAACATCATTCTTAGATAGTCAGATGTCCTCATCACAAAGGAACCAT-TTATCTCAAATA
66 ATGAGCAACATCATTCTTAGATAGCCAGATGTCCTCATCACGAAGGAACTGTGTTATCTCAAATA
*
2435347 TCTTCAA
131 TCTTTAA
* *
2435354 AGATGGCCAGATGTCCTCATCATGAAGGAACAATGTCAT
1 AGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCAT
2435393 AAACCAGTTG
Statistics
Matches: 531, Mismatches: 51, Indels: 9
0.90 0.09 0.02
Matches are distributed among these distances:
136 57 0.11
137 473 0.89
138 1 0.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (137 bp):
AGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACGA
ATGAGCAACATCATTCTTAGATAGCCAGATGTCCTCATCACGAAGGAACTGTGTTATCTCAAATA
TCTTTAA
Found at i:2435566 original size:3 final size:3
Alignment explanation
Indices: 2435558--2435589 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
2435548 GAGACTATCA
2435558 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2435590 CAAAATAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:2436510 original size:2 final size:2
Alignment explanation
Indices: 2436503--2436542 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
2436493 TACACTTTTA
2436503 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2436543 TTCGAATATT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2436751 original size:16 final size:15
Alignment explanation
Indices: 2436730--2436796 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 15
2436720 ATGTTTAAAA
2436730 TAAAATAATGAATAAT
1 TAAAATAAT-AATAAT
2436746 TAAAATAATAATAAAT
1 TAAAATAATAAT-AAT
*
2436762 ACATAAAATAATATCATTAT
1 ---TAAAATAATA--ATAAT
2436782 TAAAAGTAATAATAA
1 TAAAA-TAATAATAA
2436797 AAATTAGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 14
0.72 0.03 0.24
Matches are distributed among these distances:
15 3 0.07
16 15 0.36
17 5 0.12
18 5 0.12
19 10 0.24
20 2 0.05
21 2 0.05
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
TAAAATAATAATAAT
Found at i:2436757 original size:19 final size:19
Alignment explanation
Indices: 2436733--2436774 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
2436723 TTTAAAATAA
*
2436733 AATAATGAATA-ATTAAAAT
1 AATAATAAATACA-TAAAAT
2436752 AATAATAAATACATAAAAT
1 AATAATAAATACATAAAAT
2436771 AATA
1 AATA
2436775 TCATTATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 20 0.95
20 1 0.05
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (19 bp):
AATAATAAATACATAAAAT
Found at i:2438672 original size:19 final size:19
Alignment explanation
Indices: 2438648--2438700 Score: 79
Period size: 19 Copynumber: 2.7 Consensus size: 19
2438638 AAATAACTAG
2438648 CGAATTCGCAACTCAGTTT
1 CGAATTCGCAACTCAGTTT
*
2438667 CGAATTCGCAACACAGTTT
1 CGAATTCGCAACTCAGTTT
*
2438686 CTGAATTGGCAACTC
1 C-GAATTCGCAACTC
2438701 GAATTTGGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 19 0.63
20 11 0.37
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (19 bp):
CGAATTCGCAACTCAGTTT
Found at i:2438697 original size:20 final size:19
Alignment explanation
Indices: 2438648--2438759 Score: 82
Period size: 20 Copynumber: 5.6 Consensus size: 19
2438638 AAATAACTAG
*
2438648 CGAATTCGCAACTCAGTTT
1 CGAATTCGCAACACAGTTT
2438667 CGAATTCGCAACACAGTTT
1 CGAATTCGCAACACAGTTT
* * *
2438686 CTGAATTGGCAACTCGAATTT
1 C-GAATTCGCAACAC-AGTTT
* *
2438707 -GGATCTCGCAACACAAAATTT
1 CGAAT-TCGCAACAC--AGTTT
* **
2438728 GGAATTCGCAACACAGAAGT
1 CGAATTCGCAACACAG-TTT
2438748 CGAATTCGCAAC
1 CGAATTCGCAAC
2438760 TCGAATTTGT
Statistics
Matches: 74, Mismatches: 13, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
19 23 0.31
20 30 0.41
21 18 0.24
22 3 0.04
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (19 bp):
CGAATTCGCAACACAGTTT
Found at i:2438727 original size:21 final size:21
Alignment explanation
Indices: 2438702--2438759 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
2438692 TGGCAACTCG
2438702 AATTTGG-ATCTCGCAACACAA
1 AATTTGGAAT-TCGCAACACAA
*
2438723 AATTTGGAATTCGCAACACAG
1 AATTTGGAATTCGCAACACAA
* *
2438744 AA-GTCGAATTCGCAAC
1 AATTTGGAATTCGCAAC
2438760 TCGAATTTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 12 0.36
21 19 0.58
22 2 0.06
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.22
Consensus pattern (21 bp):
AATTTGGAATTCGCAACACAA
Found at i:2438833 original size:40 final size:42
Alignment explanation
Indices: 2438752--2438841 Score: 112
Period size: 40 Copynumber: 2.2 Consensus size: 42
2438742 AGAAGTCGAA
* *
2438752 TTCGCAACTCGAATTTGTCAATTTCACAACATGAATTTTCTT
1 TTCGCAACTCGAATTTGTCAAATTCACAACACGAATTTTCTT
* * *
2438794 TTCGCAACTCG-ATTT-TTAAATTCGCAACACGAGTTTTCTT
1 TTCGCAACTCGAATTTGTCAAATTCACAACACGAATTTTCTT
*
2438834 TTTGCAAC
1 TTCGCAAC
2438842 AATAATTTCT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 27 0.64
41 4 0.10
42 11 0.26
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.40
Consensus pattern (42 bp):
TTCGCAACTCGAATTTGTCAAATTCACAACACGAATTTTCTT
Found at i:2438908 original size:19 final size:20
Alignment explanation
Indices: 2438752--2438962 Score: 99
Period size: 20 Copynumber: 10.4 Consensus size: 20
2438742 AGAAGTCGAA
*
2438752 TTCGCAACTCGAATTTGTCAAT
1 TTCGCAACACGAA-TT-TCAAT
* * *
2438774 TTCACAACATGAATTTTC-TT
1 TTCGCAACACGAA-TTTCAAT
* * * *
2438794 TTCGCAACTCGATTTTTAAA
1 TTCGCAACACGAATTTCAAT
* *
2438814 TTCGCAACACGAGTTTTC-TT
1 TTCGCAACACGA-ATTTCAAT
* **
2438834 TTTGCAACAATAATTTCTAA-
1 TTCGCAACACGAATTTC-AAT
* * *
2438854 TTCGTAACGCGAGTTTCAAT
1 TTCGCAACACGAATTTCAAT
* *
2438874 TTCGCAACAGGAATTTCATT
1 TTCGCAACACGAATTTCAAT
* **
2438894 TTCGCAACTCG-ATTTTTAT
1 TTCGCAACACGAATTTCAAT
* *
2438913 ATTCGCAATACGAATTTTAAT
1 -TTCGCAACACGAATTTCAAT
*
2438934 TTCGCAACAC-AACTTTTAAT
1 TTCGCAACACGAA-TTTCAAT
*
2438954 TTCACAACA
1 TTCGCAACA
2438963 TAAATGTTTT
Statistics
Matches: 140, Mismatches: 41, Indels: 18
0.70 0.21 0.09
Matches are distributed among these distances:
19 16 0.11
20 98 0.70
21 13 0.09
22 13 0.09
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.38
Consensus pattern (20 bp):
TTCGCAACACGAATTTCAAT
Found at i:2439120 original size:14 final size:15
Alignment explanation
Indices: 2439101--2439138 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
2439091 TCTCCATCTC
2439101 TAATTTTTTT-TACA
1 TAATTTTTTTCTACA
*
2439115 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
2439131 TAATTTTT
1 TAATTTTT
2439139 CAATGATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:2439910 original size:24 final size:24
Alignment explanation
Indices: 2439883--2439936 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
2439873 GTATTCGAAA
*
2439883 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGCCAATACCCGGAC
* *
2439907 TTTGATCTTGGCCAATACTCGGAT
1 TTTGATCTTGGCCAATACCCGGAC
2439931 TTTGAT
1 TTTGAT
2439937 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATCTTGGCCAATACCCGGAC
Found at i:2440828 original size:19 final size:19
Alignment explanation
Indices: 2440804--2440842 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
2440794 AAAACAAATA
2440804 GAGATTGACGTTTTGAGTT
1 GAGATTGACGTTTTGAGTT
2440823 GAGATTGACGTTTTGAGTT
1 GAGATTGACGTTTTGAGTT
2440842 G
1 G
2440843 CTGTTTATCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.05, G:0.33, T:0.41
Consensus pattern (19 bp):
GAGATTGACGTTTTGAGTT
Found at i:2442567 original size:20 final size:20
Alignment explanation
Indices: 2442542--2442712 Score: 156
Period size: 20 Copynumber: 8.8 Consensus size: 20
2442532 TGCCTAGTTC
*
2442542 AAATTCGTAACTCGAAAATA
1 AAATTCGCAACTCGAAAATA
* *
2442562 AAATTCGCAACTTGAAAATC
1 AAATTCGCAACTCGAAAATA
*
2442582 AAATTCGCAACTCGAAAATC
1 AAATTCGCAACTCGAAAATA
* * *
2442602 AAATTCGCAATTCGAAACTC
1 AAATTCGCAACTCGAAAATA
*
2442622 AAATTCGCAACACG-----A
1 AAATTCGCAACTCGAAAATA
* * * *
2442637 AAA-TCGTAACTTGATATTA
1 AAATTCGCAACTCGAAAATA
2442656 AAATTCGCAACTCGAAAATA
1 AAATTCGCAACTCGAAAATA
* * * *
2442676 GAATTCACAACTGGAAAATG
1 AAATTCGCAACTCGAAAATA
2442696 AAATTCGCAACTCGAAA
1 AAATTCGCAACTCGAAA
2442713 TCGATTTTCA
Statistics
Matches: 122, Mismatches: 23, Indels: 12
0.78 0.15 0.08
Matches are distributed among these distances:
14 7 0.06
15 3 0.02
19 4 0.03
20 108 0.89
ACGTcount: A:0.46, C:0.20, G:0.12, T:0.23
Consensus pattern (20 bp):
AAATTCGCAACTCGAAAATA
Found at i:2442595 original size:40 final size:40
Alignment explanation
Indices: 2442540--2442712 Score: 180
Period size: 40 Copynumber: 4.5 Consensus size: 40
2442530 TTTGCCTAGT
*
2442540 TCAAATTCGTAACTCGAAAATAAAATTCGCAACTTGAAAA
1 TCAAATTCGCAACTCGAAAATAAAATTCGCAACTTGAAAA
* *
2442580 TCAAATTCGCAACTCGAAAATCAAATTCGCAA-TTCGAAAC
1 TCAAATTCGCAACTCGAAAATAAAATTCGCAACTT-GAAAA
* * * *
2442620 TCAAATTCGCAACACG-----AAAA-TCGTAACTTGATAT
1 TCAAATTCGCAACTCGAAAATAAAATTCGCAACTTGAAAA
* * * *
2442654 TAAAATTCGCAACTCGAAAATAGAATTCACAACTGGAAAA
1 TCAAATTCGCAACTCGAAAATAAAATTCGCAACTTGAAAA
*
2442694 TGAAATTCGCAACTCGAAA
1 TCAAATTCGCAACTCGAAA
2442713 TCGATTTTCA
Statistics
Matches: 108, Mismatches: 17, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
34 22 0.20
35 5 0.05
39 5 0.05
40 76 0.70
ACGTcount: A:0.45, C:0.20, G:0.12, T:0.23
Consensus pattern (40 bp):
TCAAATTCGCAACTCGAAAATAAAATTCGCAACTTGAAAA
Found at i:2442847 original size:20 final size:20
Alignment explanation
Indices: 2442728--2442847 Score: 81
Period size: 20 Copynumber: 6.3 Consensus size: 20
2442718 TTTCATTTTC
* * *
2442728 ATTTTCAAGTTGCAAATTCG
1 ATTTTCGAGTTGCGAATTTG
2442748 ATTTTCGAGTTGCGAATTTG
1 ATTTTCGAGTTGCGAATTTG
* *
2442768 AATGTCGAGTT--G-A---G
1 ATTTTCGAGTTGCGAATTTG
* *
2442782 ATTTTCGTGTTGTGAATTTG
1 ATTTTCGAGTTGCGAATTTG
* * * *
2442802 AGTTTCGAATTACGAATTCG
1 ATTTTCGAGTTGCGAATTTG
* *
2442822 ACTTTCGAGTTGCGAATTTA
1 ATTTTCGAGTTGCGAATTTG
2442842 ATTTTC
1 ATTTTC
2442848 TTAAAGATAG
Statistics
Matches: 74, Mismatches: 20, Indels: 12
0.70 0.19 0.11
Matches are distributed among these distances:
14 9 0.12
16 1 0.01
17 2 0.03
18 1 0.01
20 61 0.82
ACGTcount: A:0.24, C:0.12, G:0.22, T:0.42
Consensus pattern (20 bp):
ATTTTCGAGTTGCGAATTTG
Found at i:2445103 original size:21 final size:21
Alignment explanation
Indices: 2445077--2445172 Score: 86
Period size: 21 Copynumber: 4.6 Consensus size: 21
2445067 TTTACATAGT
**
2445077 ATGGGAGGTGGATCCTGAATG
1 ATGGGAGGTGGATCCTGAACA
* * *
2445098 ATGGGAGG-GGCCTCTTGAACG
1 ATGGGAGGTGG-ATCCTGAACA
* *
2445119 ATGAGAGGTGAATCCTGAACA
1 ATGGGAGGTGGATCCTGAACA
* *
2445140 ATAGGAGGTGGATCCTGAAAA
1 ATGGGAGGTGGATCCTGAACA
*
2445161 ATGGTAGGTGGA
1 ATGGGAGGTGGA
2445173 GCAGGCTTCT
Statistics
Matches: 59, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
20 2 0.03
21 56 0.95
22 1 0.02
ACGTcount: A:0.29, C:0.11, G:0.39, T:0.21
Consensus pattern (21 bp):
ATGGGAGGTGGATCCTGAACA
Found at i:2445529 original size:21 final size:21
Alignment explanation
Indices: 2445505--2445674 Score: 173
Period size: 21 Copynumber: 8.1 Consensus size: 21
2445495 TAAAACAATC
* *
2445505 TCACGTAGAGCACCTACCACA
1 TCACGTAAAGCACCTACCTCA
*
2445526 TCACGTAAAGCACCTACCTTA
1 TCACGTAAAGCACCTACCTCA
* **
2445547 CCACGTAAAGCACC-ATTGTCA
1 TCACGTAAAGCACCTA-CCTCA
*
2445568 TCACGTAAAGCAGCTACCTCA
1 TCACGTAAAGCACCTACCTCA
* *
2445589 CCACGTAAAGTACCTACCTCA
1 TCACGTAAAGCACCTACCTCA
* *
2445610 TCACGTAAAGCACCGACCTTA
1 TCACGTAAAGCACCTACCTCA
* *
2445631 TAACG-AAACGCACCGACCTCA
1 TCACGTAAA-GCACCTACCTCA
* *
2445652 TCACGTAAAACACCTAACTCA
1 TCACGTAAAGCACCTACCTCA
2445673 TC
1 TC
2445675 CCGTGGAGGT
Statistics
Matches: 121, Mismatches: 24, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
20 4 0.03
21 113 0.93
22 4 0.03
ACGTcount: A:0.35, C:0.35, G:0.12, T:0.18
Consensus pattern (21 bp):
TCACGTAAAGCACCTACCTCA
Found at i:2445870 original size:42 final size:41
Alignment explanation
Indices: 2445812--2445981 Score: 214
Period size: 42 Copynumber: 4.0 Consensus size: 41
2445802 GAGTCGGCTA
* * *
2445812 GAGGTGATGGATCTCGGTGTTAAGGTGTATAATCGACTCGAT
1 GAGGTGATGAATCTCGGTGTTAA-GTGGAGAATCGACTCGAT
* * *
2445854 AAGGTGATAAATCTCGGTGTCAAAGTGGAGAATCGACTCGAT
1 GAGGTGATGAATCTCGGTGT-TAAGTGGAGAATCGACTCGAT
* * *
2445896 GAGGTGATGGATCTCAGTGTCGAAGTGGAGAATCGACTCGAT
1 GAGGTGATGAATCTCGGTGT-TAAGTGGAGAATCGACTCGAT
*
2445938 GAGGTGATGAATCTCGGTGTTGAAGTGGAGAATCAACTCGAT
1 GAGGTGATGAATCTCGGTGTT-AAGTGGAGAATCGACTCGAT
2445980 GA
1 GA
2445982 AAAAGTAAAG
Statistics
Matches: 111, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
42 109 0.98
43 2 0.02
ACGTcount: A:0.28, C:0.13, G:0.33, T:0.26
Consensus pattern (41 bp):
GAGGTGATGAATCTCGGTGTTAAGTGGAGAATCGACTCGAT
Done.