Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_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: 11160956
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 55
Found at i:2241164 original size:18 final size:18
Alignment explanation
Indices: 2241121--2241172 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
2241111 CTCCTACTGG
2241121 GAGTATCGATACTATACCTT
1 GAGTATCGATAC--TACCTT
* *
2241141 GGGTATCGATACTCCCTT
1 GAGTATCGATACTACCTT
*
2241159 GAGTATTGATACTA
1 GAGTATCGATACTA
2241173 AAAATAAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 16 0.59
20 11 0.41
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (18 bp):
GAGTATCGATACTACCTT
Found at i:2242743 original size:12 final size:12
Alignment explanation
Indices: 2242726--2242750 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2242716 TGGCAGGTTA
2242726 ACATGGTAGATG
1 ACATGGTAGATG
2242738 ACATGGTAGATG
1 ACATGGTAGATG
2242750 A
1 A
2242751 GCTAAATTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.32, T:0.24
Consensus pattern (12 bp):
ACATGGTAGATG
Found at i:2244375 original size:18 final size:18
Alignment explanation
Indices: 2244348--2244444 Score: 140
Period size: 18 Copynumber: 5.4 Consensus size: 18
2244338 GGATTATCAA
2244348 TGGTCCTTCGGGACATAG
1 TGGTCCTTCGGGACATAG
* *
2244366 TGGTCATTCGAGACATAG
1 TGGTCCTTCGGGACATAG
2244384 TGGTCCTTCGGGACATAG
1 TGGTCCTTCGGGACATAG
* *
2244402 CGGTCCTTCGGGACACAG
1 TGGTCCTTCGGGACATAG
* *
2244420 TGGTCCTTTGGAACATAG
1 TGGTCCTTCGGGACATAG
2244438 TGGTCCT
1 TGGTCCT
2244445 ATGGGAAAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 69 1.00
ACGTcount: A:0.19, C:0.23, G:0.31, T:0.28
Consensus pattern (18 bp):
TGGTCCTTCGGGACATAG
Found at i:2253370 original size:62 final size:62
Alignment explanation
Indices: 2253197--2253471 Score: 302
Period size: 62 Copynumber: 4.5 Consensus size: 62
2253187 TGCAATTTTT
* * * * * *
2253197 ACTTTCTCATGAAGAGAAGTCAATCTATATTATCCCTGACTCCCTAGTAGAGTCAATCCTTG
1 ACTTCCTCGTGAAGAGAAGTCAACCTTTATTATTCATGACTCCCTAGTAGAGTCAATCCTTG
* * * * *
2253259 ACTTCCTCGT-AA-AAAACGTCAATCTTTATTATCCTTGACTCCCTAGTAGAGCCAATCCTTG
1 ACTTCCTCGTGAAGAGAA-GTCAACCTTTATTATTCATGACTCCCTAGTAGAGTCAATCCTTG
* * * * *
2253320 ACTTCCTCTTGAAGAGATGTCAACCTTTTTTATTCAGGACTCCCTAGTAGAGTCAATCCTAG
1 ACTTCCTCGTGAAGAGAAGTCAACCTTTATTATTCATGACTCCCTAGTAGAGTCAATCCTTG
* * * * * * *
2253382 ACTTCATCGTGAAGAGAAGTCAACCTTTATTATTCCTGATTCCATAGTAGAATCAATCATTC
1 ACTTCCTCGTGAAGAGAAGTCAACCTTTATTATTCATGACTCCCTAGTAGAGTCAATCCTTG
* *
2253444 ACTTACTCGTGAAGAGAAGTCAATCTTT
1 ACTTCCTCGTGAAGAGAAGTCAACCTTT
2253472 CTAATTTGAT
Statistics
Matches: 179, Mismatches: 31, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
60 3 0.02
61 52 0.29
62 122 0.68
63 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (62 bp):
ACTTCCTCGTGAAGAGAAGTCAACCTTTATTATTCATGACTCCCTAGTAGAGTCAATCCTTG
Found at i:2253460 original size:124 final size:123
Alignment explanation
Indices: 2253197--2253471 Score: 311
Period size: 123 Copynumber: 2.2 Consensus size: 123
2253187 TGCAATTTTT
* * * * * * ** *
2253197 ACTTTCTCATGAAGAGAAGTCAATCTATATTATCCCTGACTCCCTAGTAGAGTCAATCCTTGACT
1 ACTTACTCGTGAAGAGAAGTCAACCTTTTTTATTCAGGACTCCCTAGTAGAGTCAATCCTAGACT
* * * * * *
2253262 TCCTCGTAAAAAACGTCAATCTTTATTATCCTTGACTCCCTAGTAGAGCCAATCCTTG
66 TCATCGTAAAAAACGTCAACCTTTATTATCCTTGACTCCATAGTAGAACCAATCATTC
* * *
2253320 ACTTCCTCTTGAAGAGATGTCAACCTTTTTTATTCAGGACTCCCTAGTAGAGTCAATCCTAGACT
1 ACTTACTCGTGAAGAGAAGTCAACCTTTTTTATTCAGGACTCCCTAGTAGAGTCAATCCTAGACT
* * *
2253385 TCATCGTGAAGAGAA-GTCAACCTTTATTATTCC-TGATTCCATAGTAGAATCAATCATTC
66 TCATCGT-AA-AAAACGTCAACCTTTATTA-TCCTTGACTCCATAGTAGAACCAATCATTC
*
2253444 ACTTACTCGTGAAGAGAAGTCAATCTTT
1 ACTTACTCGTGAAGAGAAGTCAACCTTT
2253472 CTAATTTGAT
Statistics
Matches: 126, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
123 61 0.48
124 59 0.47
125 6 0.05
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (123 bp):
ACTTACTCGTGAAGAGAAGTCAACCTTTTTTATTCAGGACTCCCTAGTAGAGTCAATCCTAGACT
TCATCGTAAAAAACGTCAACCTTTATTATCCTTGACTCCATAGTAGAACCAATCATTC
Found at i:2253705 original size:137 final size:138
Alignment explanation
Indices: 2253505--2254195 Score: 674
Period size: 137 Copynumber: 5.0 Consensus size: 138
2253495 AATGAAACAA
* * * ** *
2253505 ATTATCCCTAAAGATGGCAAGA-ATTCCTCATCACGAAGGCGCAATGTCATCCACCGACCAGATC
1 ATTATCACAAAAGATGGCCAGACA-TCCTCATCACGAAGGAACAATGTCATCTACCGACCAGATC
* * * *
2253569 TCCTCATCATGTAGGAGCCACGTCATCCTTTGATAGCCAAAATTCCTCATCGCG-ACGAAACCGT
65 TCCTCATCATGTAGGAGCCACGTCATCCTTAGATAGCCAGAATTCCTCATCACGTAAGAAACCGT
2253633 GTTATCTCC
130 GTTATCTCC
* * * * *
2253642 ATTATCACTAAAGATGGCCAGACGTCCTCATCACGAATGAACAATGTCATCCACCGACTAGATCT
1 ATTATCACAAAAGATGGCCAGACATCCTCATCACGAAGGAACAATGTCATCTACCGACCAGATCT
* * * **
2253707 CCTCATCATATAGGAGCCACGTCATCCTTAGATAGCCAGAATTCTTTATCGTGTAAG-AACCGTG
66 CCTCATCATGTAGGAGCCACGTCATCCTTAGATAGCCAGAATTCCTCATCACGTAAGAAACCGTG
**
2253771 TCCTCTCC
131 TTATCTCC
* * * * * * *
2253779 ATTATTAGAAAAGATGGCCAGACGTCCTCATCACGAAGGAACACTATCATCTACTGACCATATCT
1 ATTATCACAAAAGATGGCCAGACATCCTCATCACGAAGGAACAATGTCATCTACCGACCAGATCT
* * * * * * *
2253844 CCTTATCACGAAGGAGCCGCGTCATCTTTAGATAGCCAGAATTCCTCATCAC-AAAGAAATCGTG
66 CCTCATCATGTAGGAGCCACGTCATCCTTAGATAGCCAGAATTCCTCATCACGTAAGAAACCGTG
**
2253908 TTATCTTT
131 TTATCTCC
* * * * * * *
2253916 ATTATCAAAAAAGATGGCCAGGCATCCTCAACACAAAGGAACAAAGTCATATACTGACCAGATCT
1 ATTATCACAAAAGATGGCCAGACATCCTCATCACGAAGGAACAATGTCATCTACCGACCAGATCT
* * * * * * ** ***
2253981 CCTCACCCTGAAGGAGCCACGCCATCCTTAGATAGTCAGAGTTCCTCATCACGT-AGGGACCACA
66 CCTCATCATGTAGGAGCCACGTCATCCTTAGATAGCCAGAATTCCTCATCACGTAAGAAACCGTG
* *
2254045 TTATATTC
131 TTATCTCC
* * * *
2254053 ATTATCAGAAATGATGGCCAAACATCCTCATCACGAAGGAACAATGTCATCTACCGACCATATCT
1 ATTATCACAAAAGATGGCCAGACATCCTCATCACGAAGGAACAATGTCATCTACCGACCAGATCT
* * ** * * * * * * *
2254118 CCTCATCACGTAAGAGTTACGTCATCCTTAGATAGCAAGAATTCTTCATCATGT-GGGAACCATA
66 CCTCATCATGTAGGAGCCACGTCATCCTTAGATAGCCAGAATTCCTCATCACGTAAGAAACCGTG
2254182 TTATCTCC
131 TTATCTCC
2254190 ATTATC
1 ATTATC
2254196 CATAAAAAGA
Statistics
Matches: 451, Mismatches: 99, Indels: 8
0.81 0.18 0.01
Matches are distributed among these distances:
136 3 0.01
137 446 0.99
138 2 0.00
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.25
Consensus pattern (138 bp):
ATTATCACAAAAGATGGCCAGACATCCTCATCACGAAGGAACAATGTCATCTACCGACCAGATCT
CCTCATCATGTAGGAGCCACGTCATCCTTAGATAGCCAGAATTCCTCATCACGTAAGAAACCGTG
TTATCTCC
Found at i:2254518 original size:3 final size:3
Alignment explanation
Indices: 2254510--2254541 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
2254500 TTTGTCCCAT
2254510 TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2254542 ATAATTCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:2256537 original size:59 final size:59
Alignment explanation
Indices: 2256409--2256579 Score: 229
Period size: 59 Copynumber: 2.9 Consensus size: 59
2256399 TCCTATGTGA
* * * * *
2256409 AAATTCATACACTTAGTATGAGTTTCTTATC-TTTTTGCACATAAAGTGCCCAATACTT
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACATATAGTGCCCAATACTG
*
2256467 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACATAGTGCCCAATA-TGG
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACATATAGTGCCCAATACT-G
* * * *
2256526 AAATTCATACACTTAGTATCAAATTCTTAATATTATAGCACATATAGTGCCCAA
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACATATAGTGCCCAA
2256580 ACAGTTATTC
Statistics
Matches: 100, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
58 30 0.30
59 70 0.70
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.36
Consensus pattern (59 bp):
AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACATATAGTGCCCAATACTG
Found at i:2256629 original size:54 final size:54
Alignment explanation
Indices: 2256570--2256900 Score: 455
Period size: 54 Copynumber: 6.1 Consensus size: 54
2256560 ATAGCACATA
* * * *
2256570 TAGTGCCCAAACAGTTATTCATCCACATAAGATGAATTCAGTGAAATGCACACT
1 TAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACT
* * * * *
2256624 TAGTGCTGAAACGGCTATTCATCCACATAGGATAAATTTCGTGAAATGCAAACT
1 TAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACT
* * *
2256678 TAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGAAAACA
1 TAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACT
* *
2256732 TAGTACCGAAACGGTTATTCATCCACATAGGATGAATTCTGTGAAATGCACACT
1 TAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACT
** * * *
2256786 TAGTATCGAAATGGTTATTCATCCACAAATGATGAATTCCGTGAAATGCACACT
1 TAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACT
* * * *
2256840 TACTGTCGAAACGGTTATTTATCCACATAGGATGAATTCTGTGAAATGCACACT
1 TAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACT
2256894 TAGTGCC
1 TAGTGCC
2256901 TATTTTGTAA
Statistics
Matches: 243, Mismatches: 34, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 243 1.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (54 bp):
TAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACT
Found at i:2259554 original size:59 final size:58
Alignment explanation
Indices: 2259415--2259584 Score: 220
Period size: 59 Copynumber: 2.9 Consensus size: 58
2259405 TCCGATGTGA
* * * *
2259415 AAATTCATACACTTAGTATGAGTTTCTTATC-TTTTTGCACATAA-AGTGCCTAATACGG
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAG--CATAATAGTGCCCAATACGG
* *
2259473 AAATT-ATGCACTTAGTATGAATTTCTTAACATTTTAGCATGAATAGTGCCCAATATGG
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCAT-AATAGTGCCCAATACGG
*
2259531 AAATTCATACTCTTAGTATGAATTTCTTAACATTTTAGCATACATAGTGCCCAA
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCATA-ATAGTGCCCAA
2259585 ACAGTTATTC
Statistics
Matches: 99, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
56 3 0.03
57 24 0.24
58 28 0.28
59 44 0.44
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (58 bp):
AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCATAATAGTGCCCAATACGG
Found at i:2259927 original size:54 final size:54
Alignment explanation
Indices: 2259575--2259905 Score: 518
Period size: 54 Copynumber: 6.1 Consensus size: 54
2259565 TTAGCATACA
* *
2259575 TAGTGCCCAAACAGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACT
1 TAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACT
* *
2259629 TAGTGCCGAAACGGTTATTCATCCATATAGGATGAATTCCGTGAAATGTACACT
1 TAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACT
* * * * * **
2259683 TAGTGTCAAAATGGTTATTCATCCACATAGGATGAATTCAGTAAAATGCATTCT
1 TAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACT
* *
2259737 TAGTGCCGAAACGGTTATTCATCCACATATGATGAATTCCGTGAAATGCATACT
1 TAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACT
*
2259791 TAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCATACT
1 TAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACT
* *
2259845 TAGTGCTGAAATGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACT
1 TAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACT
2259899 TAGTGCC
1 TAGTGCC
2259906 TATTTGGTAA
Statistics
Matches: 252, Mismatches: 25, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 252 1.00
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (54 bp):
TAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACT
Found at i:2260290 original size:18 final size:18
Alignment explanation
Indices: 2260256--2260290 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2260246 CTATGTTATG
**
2260256 GTATCGATACCCCTTTTT
1 GTATCGATACCAATTTTT
2260274 GTATCGATACCAATTTT
1 GTATCGATACCAATTTT
2260291 AGGTTCGATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.43
Consensus pattern (18 bp):
GTATCGATACCAATTTTT
Found at i:2260422 original size:93 final size:94
Alignment explanation
Indices: 2260214--2260449 Score: 304
Period size: 94 Copynumber: 2.5 Consensus size: 94
2260204 TGGCTCCATA
* * * * * * ***
2260214 GTATCGATACTAC-TACCCTGGTACCGATACTTCTATGTTATGGTATCGATACCCCTTTTTGTAT
1 GTATCGATAC-CCTTACCATGGTATCGATACTACCATGCTATGGTATCGATACCCCTTCCGGTAT
*
2260278 CGATACCAATTTTAGGTTCGATGTTACCTG
65 CGATACCAATTTTAGATTCGATGTTACCTG
*
2260308 GTGTCGATACCCTTACCATGGTATCGATACTACCATGCTATGGTATCGATACCCCTTCCGGTATC
1 GTATCGATACCCTTACCATGGTATCGATACTACCATGCTATGGTATCGATACCCCTTCCGGTATC
2260373 GATA-CAATTTTAGATTCGATGATT-CCTG
66 GATACCAATTTTAGATTCGATG-TTACCTG
2260401 GTATCGATACCCTTACCATGGTATCGATACTACC-T-CT-TCGGTATCGATA
1 GTATCGATACCCTTACCATGGTATCGATACTACCATGCTAT-GGTATCGATA
2260450 TCGATACTAC
Statistics
Matches: 127, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
90 1 0.01
91 12 0.09
92 1 0.01
93 54 0.43
94 59 0.46
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.35
Consensus pattern (94 bp):
GTATCGATACCCTTACCATGGTATCGATACTACCATGCTATGGTATCGATACCCCTTCCGGTATC
GATACCAATTTTAGATTCGATGTTACCTG
Found at i:2261539 original size:16 final size:16
Alignment explanation
Indices: 2261518--2261548 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2261508 ATCCCTGAAC
*
2261518 TTTAATATTTTTAATT
1 TTTAATATTATTAATT
2261534 TTTAATATTATTAAT
1 TTTAATATTATTAAT
2261549 GATTTATTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTAATATTATTAATT
Found at i:2265974 original size:12 final size:12
Alignment explanation
Indices: 2265957--2265988 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
2265947 AATTTAGTTA
2265957 TTTTATTTAATT
1 TTTTATTTAATT
2265969 TTTTATTTAATT
1 TTTTATTTAATT
*
2265981 GTTTATTT
1 TTTTATTT
2265989 TATTATACTT
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:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (12 bp):
TTTTATTTAATT
Found at i:2266357 original size:63 final size:63
Alignment explanation
Indices: 2266285--2266411 Score: 182
Period size: 63 Copynumber: 2.0 Consensus size: 63
2266275 TACCGAGGAC
* * * * *
2266285 TAACGACAAGTACTTATTTATTATTATAGTTTTTGATTTATGACTAGAAGAAACCCAGGTGAA
1 TAACGACAAGTAATAATTTATTATTATAGTTTTTGATTTATAACCAGAAGAAACCCAAGTGAA
* * *
2266348 TAACGACAAGTAATAATTTATTTTTCTAGTTTTTGATTTATAACCAGAAGAAACCTAAGTGAA
1 TAACGACAAGTAATAATTTATTATTATAGTTTTTGATTTATAACCAGAAGAAACCCAAGTGAA
2266411 T
1 T
2266412 GAGTAGATCT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
63 56 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (63 bp):
TAACGACAAGTAATAATTTATTATTATAGTTTTTGATTTATAACCAGAAGAAACCCAAGTGAA
Found at i:2267848 original size:56 final size:56
Alignment explanation
Indices: 2267762--2267875 Score: 210
Period size: 56 Copynumber: 2.0 Consensus size: 56
2267752 ATGTTAGTGC
*
2267762 CATCACACTCCGAAATGGAAAAGTTATCTCACCCAAAGTTCAAGCAGAAAAAGACG
1 CATCACACTCCGAAATGGAAAAGTTATCTCACCCAAAGTTCAAGCAAAAAAAGACG
*
2267818 CATCACACTCTGAAATGGAAAAGTTATCTCACCCAAAGTTCAAGCAAAAAAAGACG
1 CATCACACTCCGAAATGGAAAAGTTATCTCACCCAAAGTTCAAGCAAAAAAAGACG
2267874 CA
1 CA
2267876 CATCAGGAAT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.44, C:0.25, G:0.15, T:0.17
Consensus pattern (56 bp):
CATCACACTCCGAAATGGAAAAGTTATCTCACCCAAAGTTCAAGCAAAAAAAGACG
Found at i:2269156 original size:5 final size:5
Alignment explanation
Indices: 2269132--2269240 Score: 60
Period size: 5 Copynumber: 20.8 Consensus size: 5
2269122 TTCGTTCTAT
* **
2269132 TTTTA TTTTTA TTTCA TTTTA TTTT- TGTTCTA TTTCG TTTTA TTTTTA
1 TTTTA -TTTTA TTTTA TTTTA TTTTA T-TT-TA TTTTA TTTTA -TTTTA
**** * *
2269180 TTTTA TTTTTA ACAAA CTTTA TTTTGA TTCTA -TTTA TTTTA TTTTA TTTTA
1 TTTTA -TTTTA TTTTA TTTTA TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA
2269231 TTTTA CTTTT
1 TTTTA -TTTT
2269241 CTCTAAACAG
Statistics
Matches: 78, Mismatches: 17, Indels: 16
0.70 0.15 0.14
Matches are distributed among these distances:
4 4 0.05
5 47 0.60
6 26 0.33
7 1 0.01
ACGTcount: A:0.19, C:0.06, G:0.03, T:0.72
Consensus pattern (5 bp):
TTTTA
Found at i:2269165 original size:21 final size:21
Alignment explanation
Indices: 2269120--2269187 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
2269110 GAGGTAACCC
* * *
2269120 ATTTCGTTCTATTTTTATTTTT
1 ATTTCATTTTATTTTTA-TTCT
*
2269142 ATTTCATTTTATTTTTGTTCT
1 ATTTCATTTTATTTTTATTCT
* *
2269163 ATTTCGTTTTATTTTTATTTT
1 ATTTCATTTTATTTTTATTCT
2269184 ATTT
1 ATTT
2269188 TTAACAAACT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
21 25 0.64
22 14 0.36
ACGTcount: A:0.15, C:0.07, G:0.04, T:0.74
Consensus pattern (21 bp):
ATTTCATTTTATTTTTATTCT
Found at i:2269188 original size:10 final size:10
Alignment explanation
Indices: 2269132--2269240 Score: 60
Period size: 11 Copynumber: 10.4 Consensus size: 10
2269122 TTCGTTCTAT
2269132 TTTTATTTTTA
1 TTTTA-TTTTA
*
2269143 TTTCATTTTA
1 TTTTATTTTA
2269153 TTTT-TGTTCTA
1 TTTTAT-TT-TA
**
2269164 TTTCGTTTTA
1 TTTTATTTTA
2269174 TTTTTATTTTA
1 -TTTTATTTTA
****
2269185 TTTTTAACAAA
1 -TTTTATTTTA
*
2269196 CTTTATTTTGA
1 TTTTATTTT-A
*
2269207 TTCTA-TTTA
1 TTTTATTTTA
2269216 TTTTATTTTA
1 TTTTATTTTA
2269226 TTTTATTTTA
1 TTTTATTTTA
2269236 CTTTT
1 -TTTT
2269241 CTCTAAACAG
Statistics
Matches: 74, Mismatches: 17, Indels: 14
0.70 0.16 0.13
Matches are distributed among these distances:
9 6 0.08
10 33 0.45
11 34 0.46
12 1 0.01
ACGTcount: A:0.19, C:0.06, G:0.03, T:0.72
Consensus pattern (10 bp):
TTTTATTTTA
Found at i:2270456 original size:39 final size:37
Alignment explanation
Indices: 2270396--2270469 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 37
2270386 AAATAAAAAA
2270396 AGAGAAAAAAAGAAGAAAAAAATCCACAGTTTCAAAC
1 AGAGAAAAAAAGAAGAAAAAAATCCACAGTTTCAAAC
* *
2270433 AGAGAAAAAAAAGAA-AAGGAAAAATCGACCGTTTCAA
1 AGAG-AAAAAAAGAAGAA--AAAAATCCACAGTTTCAA
2270470 TTGCCTTTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
37 6 0.19
38 10 0.31
39 16 0.50
ACGTcount: A:0.61, C:0.12, G:0.16, T:0.11
Consensus pattern (37 bp):
AGAGAAAAAAAGAAGAAAAAAATCCACAGTTTCAAAC
Found at i:2273519 original size:13 final size:12
Alignment explanation
Indices: 2273472--2273519 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 12
2273462 CTTAGCATTT
2273472 TAAAAGAAAAA-
1 TAAAAGAAAAAC
*
2273483 TAAAATAAAAAC
1 TAAAAGAAAAAC
2273495 TTAAAAGTAAAAAC
1 -TAAAAG-AAAAAC
2273509 TAAAGAGAAAA
1 TAAA-AGAAAA
2273520 GTAAAACCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
11 10 0.32
13 13 0.42
14 8 0.26
ACGTcount: A:0.73, C:0.04, G:0.08, T:0.15
Consensus pattern (12 bp):
TAAAAGAAAAAC
Found at i:2284470 original size:16 final size:18
Alignment explanation
Indices: 2284449--2284481 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2284439 CTCCTAACTG
2284449 TCAAT-CGA-AAACACTA
1 TCAATCCGACAAACACTA
2284465 TCAATCCGACAAACACT
1 TCAATCCGACAAACACT
2284482 TTTTGAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 3 0.20
18 7 0.47
ACGTcount: A:0.45, C:0.30, G:0.06, T:0.18
Consensus pattern (18 bp):
TCAATCCGACAAACACTA
Found at i:2292856 original size:16 final size:18
Alignment explanation
Indices: 2292835--2292867 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2292825 CTCCTAACTG
2292835 TCAAT-CGA-AAACACTA
1 TCAATCCGACAAACACTA
2292851 TCAATCCGACAAACACT
1 TCAATCCGACAAACACT
2292868 TTTTGAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 3 0.20
18 7 0.47
ACGTcount: A:0.45, C:0.30, G:0.06, T:0.18
Consensus pattern (18 bp):
TCAATCCGACAAACACTA
Found at i:2304657 original size:112 final size:112
Alignment explanation
Indices: 2304460--2304685 Score: 452
Period size: 112 Copynumber: 2.0 Consensus size: 112
2304450 ATACTTGCAC
2304460 AGTTTACGAAACATTTACACAACATAACACTTACCTAGTATATAGGAGGTGGTAGATGCTTACAT
1 AGTTTACGAAACATTTACACAACATAACACTTACCTAGTATATAGGAGGTGGTAGATGCTTACAT
2304525 TGGTAGACGTTATCGTACTTTCACATAAGGATATTTAATGTATATCA
66 TGGTAGACGTTATCGTACTTTCACATAAGGATATTTAATGTATATCA
2304572 AGTTTACGAAACATTTACACAACATAACACTTACCTAGTATATAGGAGGTGGTAGATGCTTACAT
1 AGTTTACGAAACATTTACACAACATAACACTTACCTAGTATATAGGAGGTGGTAGATGCTTACAT
2304637 TGGTAGACGTTATCGTACTTTCACATAAGGATATTTAATGTATATCA
66 TGGTAGACGTTATCGTACTTTCACATAAGGATATTTAATGTATATCA
2304684 AG
1 AG
2304686 GTCTTGTTAA
Statistics
Matches: 114, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
112 114 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (112 bp):
AGTTTACGAAACATTTACACAACATAACACTTACCTAGTATATAGGAGGTGGTAGATGCTTACAT
TGGTAGACGTTATCGTACTTTCACATAAGGATATTTAATGTATATCA
Found at i:2311212 original size:2 final size:2
Alignment explanation
Indices: 2311205--2311247 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
2311195 TAGGTCATTA
2311205 AT AT 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 AT AT
2311247 A
1 A
2311248 AGAATGTAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2314153 original size:15 final size:15
Alignment explanation
Indices: 2314133--2314163 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2314123 CAACAAATAG
2314133 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
2314148 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
2314163 A
1 A
2314164 TTTATAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:2324053 original size:20 final size:20
Alignment explanation
Indices: 2324030--2324080 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
2324020 AAACTTTTAA
* *
2324030 CTTTTTCTTTTCTCTTTCTT
1 CTTTTACTTTTCTATTTCTT
*
2324050 CTTTAACTTTTCTATTTCTT
1 CTTTTACTTTTCTATTTCTT
2324070 -TTTTAACTTTT
1 CTTTT-ACTTTT
2324081 ACTTTTTATC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 3 0.12
20 23 0.88
ACGTcount: A:0.10, C:0.20, G:0.00, T:0.71
Consensus pattern (20 bp):
CTTTTACTTTTCTATTTCTT
Found at i:2324084 original size:26 final size:27
Alignment explanation
Indices: 2324008--2324086 Score: 69
Period size: 26 Copynumber: 3.0 Consensus size: 27
2323998 CCTATCACCC
* *
2324008 CTTTTC-CCTTCTAAACTTTTAACTTTTT
1 CTTTTCTCTTTCTTAACTTTT-AC-TTTT
*
2324036 CTTTTCTCTTTCTT--CTTTAACTTTT
1 CTTTTCTCTTTCTTAACTTTTACTTTT
2324061 CTATTTCT-TTT-TTAACTTTTACTTTT
1 CT-TTTCTCTTTCTTAACTTTTACTTTT
2324087 TATCTCTCAT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
24 2 0.05
25 9 0.21
26 17 0.40
27 4 0.09
28 6 0.14
29 5 0.12
ACGTcount: A:0.14, C:0.22, G:0.00, T:0.65
Consensus pattern (27 bp):
CTTTTCTCTTTCTTAACTTTTACTTTT
Found at i:2329693 original size:20 final size:20
Alignment explanation
Indices: 2329665--2329716 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
2329655 CTGATGGAGA
*
2329665 GTATCGATACTCTCCCCTTG
1 GTATTGATACTCTCCCCTTG
2329685 GTATTGATACTCTCCCCTTG
1 GTATTGATACTCTCCCCTTG
2329705 GTATTGATACTC
1 GTATTGATACTC
2329717 CCATGAGTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.17, C:0.29, G:0.15, T:0.38
Consensus pattern (20 bp):
GTATTGATACTCTCCCCTTG
Found at i:2335206 original size:21 final size:21
Alignment explanation
Indices: 2335148--2335206 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
2335138 TGATTTATTA
*
2335148 TTATGGATTTCAAGTTGGTTG
1 TTATGGATTTCAAGTTTGTTG
2335169 TTATGGATTTCAAGTTTGTTG
1 TTATGGATTTCAAGTTTGTTG
* *
2335190 TTATGGATGTCATGTTT
1 TTATGGATTTCAAGTTT
2335207 ATTGGATAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.19, C:0.05, G:0.25, T:0.51
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTGTTG
Found at i:2338053 original size:13 final size:13
Alignment explanation
Indices: 2338035--2338059 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2338025 TTTTGAATAG
2338035 TGTTGTGAGAAAA
1 TGTTGTGAGAAAA
2338048 TGTTGTGAGAAA
1 TGTTGTGAGAAA
2338060 GTATTTAAAA
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:0.00, G:0.32, T:0.32
Consensus pattern (13 bp):
TGTTGTGAGAAAA
Found at i:2339252 original size:35 final size:36
Alignment explanation
Indices: 2339208--2339288 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 36
2339198 AACACAGTCA
* * *
2339208 TCAAGTACATTTTAAATCC-CAAATT-CTAAAATGCT
1 TCAATTACATTTTAAA-CCTCAAATTCCAAAAATACT
2339243 TCAATTACATTTTAAACCTCAAATTCCAAAAATACT
1 TCAATTACATTTTAAACCTCAAATTCCAAAAATACT
*
2339279 TTAATTACAT
1 TCAATTACAT
2339289 ACCCAACCCC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
34 2 0.05
35 21 0.52
36 17 0.43
ACGTcount: A:0.42, C:0.20, G:0.02, T:0.36
Consensus pattern (36 bp):
TCAATTACATTTTAAACCTCAAATTCCAAAAATACT
Found at i:2344480 original size:20 final size:20
Alignment explanation
Indices: 2344455--2344492 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2344445 CAGTATGTCC
2344455 AGAGGGAACCGACTCCCCTA
1 AGAGGGAACCGACTCCCCTA
* *
2344475 AGAGGGTACCGATTCCCC
1 AGAGGGAACCGACTCCCC
2344493 CTGAATGGTT
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:0.26, C:0.34, G:0.26, T:0.13
Consensus pattern (20 bp):
AGAGGGAACCGACTCCCCTA
Found at i:2352024 original size:23 final size:22
Alignment explanation
Indices: 2351982--2352030 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 22
2351972 TGTTAAAACA
*
2351982 TTTTGGATGTTTTTGGATTTGTG
1 TTTTGGATG-TTTTGGATTTCTG
2352005 TTTTGGATG-TTTGGATATTTCTG
1 TTTTGGATGTTTTGG--ATTTCTG
2352028 TTT
1 TTT
2352031 GAATGGTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 5 0.22
23 18 0.78
ACGTcount: A:0.10, C:0.02, G:0.27, T:0.61
Consensus pattern (22 bp):
TTTTGGATGTTTTGGATTTCTG
Found at i:2353935 original size:20 final size:20
Alignment explanation
Indices: 2353912--2354002 Score: 128
Period size: 20 Copynumber: 4.5 Consensus size: 20
2353902 ATATGAATAG
2353912 TATCGATACTATGTGAACAA
1 TATCGATACTATGTGAACAA
* * *
2353932 TATCGATACTGTGTGAATAG
1 TATCGATACTATGTGAACAA
2353952 TATCGATACTATGTGAACAA
1 TATCGATACTATGTGAACAA
* * *
2353972 TATCGATACTGTGTGAATAG
1 TATCGATACTATGTGAACAA
2353992 TATCGATACTA
1 TATCGATACTA
2354003 AAAAATCGAA
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (20 bp):
TATCGATACTATGTGAACAA
Found at i:2353960 original size:40 final size:40
Alignment explanation
Indices: 2353905--2354002 Score: 196
Period size: 40 Copynumber: 2.5 Consensus size: 40
2353895 AAATATTATA
2353905 TGAATAGTATCGATACTATGTGAACAATATCGATACTGTG
1 TGAATAGTATCGATACTATGTGAACAATATCGATACTGTG
2353945 TGAATAGTATCGATACTATGTGAACAATATCGATACTGTG
1 TGAATAGTATCGATACTATGTGAACAATATCGATACTGTG
2353985 TGAATAGTATCGATACTA
1 TGAATAGTATCGATACTA
2354003 AAAAATCGAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (40 bp):
TGAATAGTATCGATACTATGTGAACAATATCGATACTGTG
Found at i:2354983 original size:3 final size:3
Alignment explanation
Indices: 2354977--2355026 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
2354967 TACACTATAG
2354977 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2355025 TA
1 TA
2355027 CTAATATCAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:2368659 original size:20 final size:20
Alignment explanation
Indices: 2368634--2368681 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
2368624 CCATAACTTT
2368634 GTAAATTCAATTTCTTGTCA
1 GTAAATTCAATTTCTTGTCA
2368654 GTAAATTCAATTTCTTGTCA
1 GTAAATTCAATTTCTTGTCA
2368674 GTAAATTC
1 GTAAATTC
2368682 GAAGTTTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (20 bp):
GTAAATTCAATTTCTTGTCA
Found at i:2369459 original size:136 final size:136
Alignment explanation
Indices: 2369213--2369555 Score: 520
Period size: 136 Copynumber: 2.6 Consensus size: 136
2369203 GTGAACCAAT
2369213 ATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGA
1 ATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGA
*
2369278 GAAGATCTTGTTCGACCTATCACTCGATTCACGACATTTCAAATCAGTGACACCTCGCTTGAGGG
66 GAAGAACTTGTTCGACCTATCACTCGATTCACGACATTTCAAATCAGTGACACCTCGCTTGAGGG
2369343 ATCAAC
131 ATCAAC
*
2369349 ATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATTCGACAGAGGGAGAAGAAGTTCATAATGA
1 ATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGA
* * *
2369414 GAAGAGCTTGTTCGACCTATCACTCGATTCACGGCATTTCGAATCAGTGACACCTCGCTTGAGGG
66 GAAGAACTTGTTCGACCTATCACTCGATTCACGACATTTCAAATCAGTGACACCTCGCTTGAGGG
**
2369479 ATTGAC
131 ATCAAC
* * * * * *
2369485 ATTTTTAA--AAGAGTTTATAATGAGAATAACTCGTCCTA-A-A-GGAG-A-AAGTTCATAATGA
1 ATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGA
2369543 GAAGAACTTGTTC
66 GAAGAACTTGTTC
2369556 CTTTCAAGTC
Statistics
Matches: 193, Mismatches: 14, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
129 25 0.13
130 1 0.01
131 4 0.02
132 1 0.01
133 1 0.01
134 24 0.12
136 137 0.71
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (136 bp):
ATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGA
GAAGAACTTGTTCGACCTATCACTCGATTCACGACATTTCAAATCAGTGACACCTCGCTTGAGGG
ATCAAC
Found at i:2369765 original size:240 final size:240
Alignment explanation
Indices: 2369341--2369906 Score: 988
Period size: 240 Copynumber: 2.4 Consensus size: 240
2369331 CTCGCTTGAG
* * *
2369341 GGATCAACATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATTCGACAGAGGGAGAAGAAGTT
1 GGATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCAAC-GAGGGAGAAGAAGTT
*
2369406 CATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGGCATTTCGAATCAGTGACACCTCG
65 CATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTCGAATCAGTGACACCTCG
* * * *
2369471 CTTGAGGGATTGACATTTTTAAAAGAGTTTATAATGAGAATAACTCGTCCTAAAGGAGAAAGTTC
130 CTTGAGGGATTGACATTTTCAAAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTA
2369536 ATAATGAGAAGAACTTGTTCCTTTCAAGTCCATCACAGAAAGAGAT
195 ATAATGAGAAGAACTTGTTCCTTTCAAGTCCATCACAGAAAGAGAT
* *
2369582 GGATCAACATTTCCAATGGAGAGTTCCTAATGAGAAGAACTCATCCAACGAGGGAGAATAAGTTC
1 GGATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTC
* *
2369647 ATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGATATTTCGAATCAGTGACACCTCTC
66 ATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTCGAATCAGTGACACCTCGC
2369712 TTGAGGGATTGACATTTTCAAAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTAA
131 TTGAGGGATTGACATTTTCAAAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTAA
2369777 TAATGAGAAGAACTTGTTCCTTTCAAGTCCATCACAGAAAGAGAT
196 TAATGAGAAGAACTTGTTCCTTTCAAGTCCATCACAGAAAGAGAT
* *
2369822 GGATCAACATTTCCAATGGAGAGTTCATAATGAGAATAACTCATCCAACGAGGTAGAAGAAGTTC
1 GGATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTC
*
2369887 ATAATGAGAAGAACTTGTTC
66 ATAATGAGAAGAGCTTGTTC
2369907 AACTTCGCAT
Statistics
Matches: 308, Mismatches: 17, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
240 263 0.85
241 45 0.15
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (240 bp):
GGATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTC
ATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTCGAATCAGTGACACCTCGC
TTGAGGGATTGACATTTTCAAAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTAA
TAATGAGAAGAACTTGTTCCTTTCAAGTCCATCACAGAAAGAGAT
Found at i:2370017 original size:332 final size:330
Alignment explanation
Indices: 2369584--2370239 Score: 1012
Period size: 332 Copynumber: 2.0 Consensus size: 330
2369574 AAAGAGATGG
* * *
2369584 ATCAACATTTCCAATGGAGAGTTCCTAATGAGAAGAACTCATCCAACGAGGGAGAATAAGTTCAT
1 ATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCAAAGAGAGAGAATAAGTTCAT
* *
2369649 AATGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGATATTTCGAATCAGTGACACCTC-TCT
66 AATGAGAAGAGCTTGATCGACCTATCACTCGATTCACAATATTTCGAATCAGTGACACCTCGT-T
* *
2369713 TGAGGGATTGACATTTTCAAAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTAAT
130 AGAGGGATTGACATTTCCAAAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTAAT
* * * *
2369778 AATGAGAAGAACTTGTTCCTTTCAAGTCCATCACAGAAAGAGATGGA-TCAACATTTCCAATGGA
195 AATGAAAAGAAATTGTTCCTTTCAAGTCCACCACAGAAAGAGAT-GACTCAACATTTCCAATGAA
*
2369842 GAGTTCATAATGAGAATAACTCATCCAACGAG-GTAGAAGAAGTTCATAATGAGAAGAACTTGTT
259 GAGTTCATAATGAGAAGAACTCATCC-ACGAGAG-AGAAGAAGTTCATAATGAGAAGAACTTGTT
2369906 CAACTTCGC
322 CAACTTCGC
*
2369915 ATCAACATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGAGAGAATAAGTTCA
1 ATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCC-AAAGAGAGAGAATAAGTTCA
* * *
2369980 TAATGAGAAGAGCTTGATCGACCTATCACTTGATTCACAATATTTTGAATCAGTGACGCCTCGTT
65 TAATGAGAAGAGCTTGATCGACCTATCACTCGATTCACAATATTTCGAATCAGTGACACCTCGTT
* * * *
2370045 AGAGGGATTGACATTTCCAAAAGAGTTCATAATGAGAATAACTTGTCTTAAAGGAGAAAGTTCAT
130 AGAGGGATTGACATTTCCAAAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTAAT
* * * * * *
2370110 AATGAAAATAAATTGTTCCTTTCAAGTCCACCACATAAATAGGTGACTCAACATTTTCAGTGAAG
195 AATGAAAAGAAATTGTTCCTTTCAAGTCCACCACAGAAAGAGATGACTCAACATTTCCAATGAAG
2370175 AGTTCATAATGAGAAGAACTCATCCACGAGAGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA
260 AGTTCATAATGAGAAGAACTCATCCACGAGAGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA
2370240 TCCAACGACG
Statistics
Matches: 295, Mismatches: 26, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
331 82 0.28
332 212 0.72
333 1 0.00
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.26
Consensus pattern (330 bp):
ATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCAAAGAGAGAGAATAAGTTCAT
AATGAGAAGAGCTTGATCGACCTATCACTCGATTCACAATATTTCGAATCAGTGACACCTCGTTA
GAGGGATTGACATTTCCAAAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTAATA
ATGAAAAGAAATTGTTCCTTTCAAGTCCACCACAGAAAGAGATGACTCAACATTTCCAATGAAGA
GTTCATAATGAGAAGAACTCATCCACGAGAGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
TTCGC
Found at i:2370406 original size:30 final size:27
Alignment explanation
Indices: 2370368--2370439 Score: 76
Period size: 30 Copynumber: 2.6 Consensus size: 27
2370358 GAATTAAAAT
2370368 ATAT-ATTATATTTATTATTATATACTA
1 ATATCATTATATTTATTATTAT-TACTA
*
2370395 TAGTATGATTAT-TATTATTATTATTACTA
1 -A-TATCATTATAT-TTATTATTATTACTA
*
2370424 ATATCATTTTATTTAT
1 ATATCATTATATTTAT
2370440 ATTTTATGCA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
27 11 0.29
28 3 0.08
29 9 0.24
30 15 0.39
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (27 bp):
ATATCATTATATTTATTATTATTACTA
Found at i:2375099 original size:2 final size:2
Alignment explanation
Indices: 2375092--2375151 Score: 106
Period size: 2 Copynumber: 31.0 Consensus size: 2
2375082 TAAATAATGA
2375092 AT AT 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 AT AT
2375134 AT AT AT AT A- AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT
2375152 GTATTTGTAA
Statistics
Matches: 56, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 54 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2377371 original size:18 final size:18
Alignment explanation
Indices: 2377344--2377379 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2377334 TGTTGAATCC
* *
2377344 CCAAAGATGCTCCAATAT
1 CCAAAAATGCCCCAATAT
2377362 CCAAAAATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
2377380 TTCATGTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.31, G:0.08, T:0.19
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:2378493 original size:18 final size:17
Alignment explanation
Indices: 2378468--2378531 Score: 73
Period size: 17 Copynumber: 3.9 Consensus size: 17
2378458 ATTTTTGTTC
2378468 TTTCTTTTTTCTTTTGT
1 TTTCTTTTTTCTTTTGT
2378485 TTATCTTTTTTC-TTTG-
1 TT-TCTTTTTTCTTTTGT
*
2378501 TTT-TTTTTTCTTCT-T
1 TTTCTTTTTTCTTTTGT
2378516 TTTCTTCTTTTCTTTT
1 TTTCTT-TTTTCTTTT
2378532 TTGTTCTTGA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
14 7 0.17
15 6 0.15
16 4 0.10
17 14 0.35
18 9 0.22
ACGTcount: A:0.02, C:0.14, G:0.03, T:0.81
Consensus pattern (17 bp):
TTTCTTTTTTCTTTTGT
Found at i:2378515 original size:24 final size:25
Alignment explanation
Indices: 2378468--2378539 Score: 73
Period size: 24 Copynumber: 3.0 Consensus size: 25
2378458 ATTTTTGTTC
2378468 TTTCTT-TTTTCTTTTGTT-TATCTTT
1 TTTCTTCTTTTCTTTT-TTCT-TCTTT
2378493 TTTCTT-TGTTT-TTTTTTCTTC-TT
1 TTTCTTCT-TTTCTTTTTTCTTCTTT
*
2378516 TTTCTTCTTTTCTTTTTTGTTCTT
1 TTTCTTCTTTTCTTTTTTCTTCTT
2378540 GATTAGATCT
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
23 11 0.27
24 14 0.34
25 13 0.32
26 3 0.07
ACGTcount: A:0.01, C:0.14, G:0.04, T:0.81
Consensus pattern (25 bp):
TTTCTTCTTTTCTTTTTTCTTCTTT
Found at i:2378526 original size:22 final size:22
Alignment explanation
Indices: 2378465--2378532 Score: 61
Period size: 23 Copynumber: 3.1 Consensus size: 22
2378455 TTGATTTTTG
*
2378465 TTCTTTCTTTT-TTCTTTTGTTT
1 TTCTTT-TTTTCTTCTTTTCTTT
* *
2378487 ATC-TTTTTTCTT-TGTTTTTTT
1 TTCTTTTTTTCTTCT-TTTCTTT
2378508 TTCTTCTTTTTCTTCTTTTCTTT
1 TTCTT-TTTTTCTTCTTTTCTTT
2378531 TT
1 TT
2378533 TGTTCTTGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
20 5 0.14
21 12 0.32
22 3 0.08
23 16 0.43
24 1 0.03
ACGTcount: A:0.01, C:0.15, G:0.03, T:0.81
Consensus pattern (22 bp):
TTCTTTTTTTCTTCTTTTCTTT
Found at i:2378538 original size:18 final size:17
Alignment explanation
Indices: 2378449--2378539 Score: 73
Period size: 18 Copynumber: 5.1 Consensus size: 17
2378439 TTGTCCCTTT
2378449 TTCTTTTTGATTTTTGTTC
1 TTCTTTTT--TTTTTGTTC
2378468 TTTCTTTTTTCTTTTGTT-
1 -TTCTTTTTT-TTTTGTTC
*
2378486 TATCTTTTTTCTTTGTT-
1 T-TCTTTTTTTTTTGTTC
2378503 TT-TTTTTCTTCTTT-TTC
1 TTCTTTTT-TT-TTTGTTC
2378520 TTCTTTTCTTTTTTGTTC
1 TTCTTTT-TTTTTTGTTC
2378538 TT
1 TT
2378540 GATTAGATCT
Statistics
Matches: 61, Mismatches: 2, Indels: 18
0.75 0.02 0.22
Matches are distributed among these distances:
15 5 0.08
16 4 0.07
17 16 0.26
18 20 0.33
19 8 0.13
20 8 0.13
ACGTcount: A:0.02, C:0.13, G:0.05, T:0.79
Consensus pattern (17 bp):
TTCTTTTTTTTTTGTTC
Found at i:2379697 original size:16 final size:17
Alignment explanation
Indices: 2379676--2379708 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
2379666 GTAGATAAAG
2379676 ATGCAAAAATG-AAAAT
1 ATGCAAAAATGCAAAAT
2379692 ATGCAAAAATGCAAAAT
1 ATGCAAAAATGCAAAAT
2379709 TTAAGAATGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.61, C:0.09, G:0.12, T:0.18
Consensus pattern (17 bp):
ATGCAAAAATGCAAAAT
Found at i:2382803 original size:37 final size:38
Alignment explanation
Indices: 2382720--2382803 Score: 111
Period size: 37 Copynumber: 2.3 Consensus size: 38
2382710 AAAAATGTTA
*
2382720 AAAATAATAATAACAATAAATAAAAATTAAATACATCC
1 AAAATAATAATAACAATAAATAAAAAATAAATACATCC
* *
2382758 AAAA-AATAATAATAATAAATAAATAAATAAA-ATA-CC
1 AAAATAATAATAACAATAAATAAA-AAATAAATACATCC
2382794 AAAATAATAA
1 AAAATAATAA
2382804 ATCAAAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
36 6 0.15
37 25 0.61
38 10 0.24
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (38 bp):
AAAATAATAATAACAATAAATAAAAAATAAATACATCC
Found at i:2383954 original size:2 final size:2
Alignment explanation
Indices: 2383881--2383941 Score: 78
Period size: 2 Copynumber: 33.0 Consensus size: 2
2383871 TAAATAATGA
2383881 AT AT AT AT AT AT AT AT AT A- 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 AT AT AT AT AT
*
2383921 AT -T AT AT AT -T CT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
2383942 TTGTAAAATA
Statistics
Matches: 53, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
1 5 0.09
2 48 0.91
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2388493 original size:33 final size:34
Alignment explanation
Indices: 2388429--2388493 Score: 80
Period size: 35 Copynumber: 1.9 Consensus size: 34
2388419 ATTATTATTA
* *
2388429 TTTTTTTATTTTTATACTATAATTTTTTCCTTAAT
1 TTTTTTTATTTTTATAC-ATAATTATGTCCTTAAT
2388464 TTTTTTTATTTTTA-A-ATAATCTATGTCCTT
1 TTTTTTTATTTTTATACATAAT-TATGTCCTT
2388494 GTGATACGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 5 0.19
33 7 0.26
34 1 0.04
35 14 0.52
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.66
Consensus pattern (34 bp):
TTTTTTTATTTTTATACATAATTATGTCCTTAAT
Found at i:2396683 original size:28 final size:28
Alignment explanation
Indices: 2396652--2396722 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
2396642 GGGATACGTA
* * *
2396652 GAGACACTTTACTATCCATGGATGAGTG
1 GAGACACTTCACTATCCAAGAATGAGTG
* * *
2396680 GAGACAGTTCGCTTTCCAAGAATGAGTG
1 GAGACACTTCACTATCCAAGAATGAGTG
2396708 GAGACACTTCACTAT
1 GAGACACTTCACTAT
2396723 TCTATTTGGG
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (28 bp):
GAGACACTTCACTATCCAAGAATGAGTG
Found at i:2398917 original size:37 final size:38
Alignment explanation
Indices: 2398876--2399073 Score: 111
Period size: 37 Copynumber: 5.2 Consensus size: 38
2398866 GTTCACTAAG
2398876 AAATAGATTGCGATATAGAATGTTAAT-TTTTTTAATA
1 AAATAGATTGCGATATAGAATGTTAATGTTTTTTAATA
* *** * * *
2398913 AAATAGGTTGCGCCCTAGAATG-TCATGGTTTTAAATA
1 AAATAGATTGCGATATAGAATGTTAATGTTTTTTAATA
** *
2398950 TAAATAGATTGTAATAT-GTTATGTTAATGATTTTTTAATA
1 -AAATAGATTGCGATATAG-AATGTTAATG-TTTTTTAATA
* * * * *
2398990 AAATAGGTTGCGCCTA-AGAATG-TAATGGTTTTGAAGA
1 AAATAGATTGCG-ATATAGAATGTTAATGTTTTTTAATA
* * * *
2399027 GAAATTGGTTGCGATAT-GTTATGTTAATATTTTTTTTAATA
1 -AAATAGATTGCGATATAG-AATGTT-A-ATGTTTTTTAATA
2399068 AAATAG
1 AAATAG
2399074 GTTGTGCCCA
Statistics
Matches: 115, Mismatches: 33, Indels: 23
0.67 0.19 0.13
Matches are distributed among these distances:
36 3 0.03
37 37 0.32
38 32 0.28
39 17 0.15
40 17 0.15
41 9 0.08
ACGTcount: A:0.36, C:0.05, G:0.18, T:0.41
Consensus pattern (38 bp):
AAATAGATTGCGATATAGAATGTTAATGTTTTTTAATA
Found at i:2399096 original size:78 final size:78
Alignment explanation
Indices: 2398902--2399241 Score: 470
Period size: 78 Copynumber: 4.4 Consensus size: 78
2398892 AGAATGTTAA
* * * * *
2398902 TTTTTTTAATAAAATAGGTTGCGCCCTAGAATGTCATGGTTTTAAATATAAATAGATTGTAATAT
1 TTTTTTTAATAAAATAGGTTGCGCCCAAGAATGTCATGGTTTTGAATAGAAATAGGTTGTGATAT
2398967 GTTATGTTAATGA-
66 GTTATGTTAAT-AT
* * * * *
2398980 -TTTTTTAATAAAATAGGTTGCGCCTAAGAATGTAATGGTTTTGAAGAGAAATTGGTTGCGATAT
1 TTTTTTTAATAAAATAGGTTGCGCCCAAGAATGTCATGGTTTTGAATAGAAATAGGTTGTGATAT
2399044 GTTATGTTAATAT
66 GTTATGTTAATAT
* *
2399057 TTTTTTTAATAAAATAGGTTGTGCCCAAGAATGTCATGGTTTTGAATAGAAATAGGTTTTGATAT
1 TTTTTTTAATAAAATAGGTTGCGCCCAAGAATGTCATGGTTTTGAATAGAAATAGGTTGTGATAT
*
2399122 GTTTTGTTAATAT
66 GTTATGTTAATAT
* * * **
2399135 TTTTTTTAATAAAATAAGTTACACTTAAGAATGTCATGGTTTTGAATAGAAAT-GGTTGTGATAT
1 TTTTTTTAATAAAATAGGTTGCGCCCAAGAATGTCATGGTTTTGAATAGAAATAGGTTGTGATAT
2399199 GTTATGTTAATAT
66 GTTATGTTAATAT
2399212 TTTTTTATGAATAAAATAGGTTGCGCCCAA
1 TTTTTT-T-AATAAAATAGGTTGCGCCCAA
2399242 AAAAACAATT
Statistics
Matches: 227, Mismatches: 31, Indels: 7
0.86 0.12 0.03
Matches are distributed among these distances:
76 1 0.00
77 93 0.41
78 117 0.52
79 16 0.07
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.42
Consensus pattern (78 bp):
TTTTTTTAATAAAATAGGTTGCGCCCAAGAATGTCATGGTTTTGAATAGAAATAGGTTGTGATAT
GTTATGTTAATAT
Found at i:2399110 original size:155 final size:154
Alignment explanation
Indices: 2398902--2399241 Score: 493
Period size: 155 Copynumber: 2.2 Consensus size: 154
2398892 AGAATGTTAA
* *
2398902 TTTTTTTAATAAAATAGGTTGCGCCCTAGAATGTCATGGTTTTAAATATAAATAGATTGTAATAT
1 TTTTTTTAATAAAATAGGTTGCGCCCAAGAATGTCATGGTTTTAAATAGAAATAGATTGTAATAT
* * *
2398967 GTTATGTTAATGA-TTTTTTAATAAAATAGGTTGCGCCTAAGAATGTAATGGTTTTGAAGAGAAA
66 GTTATGTTAAT-ATTTTTTTAATAAAATAAGTTACACCTAAGAATGTAATGGTTTTGAAGAGAAA
2399031 TTGGTTGCGATATGTTATGTTAATAT
130 -TGGTTGCGATATGTTATGTTAATAT
* * * * *
2399057 TTTTTTTAATAAAATAGGTTGTGCCCAAGAATGTCATGGTTTTGAATAGAAATAGGTTTTGATAT
1 TTTTTTTAATAAAATAGGTTGCGCCCAAGAATGTCATGGTTTTAAATAGAAATAGATTGTAATAT
* * * *
2399122 GTTTTGTTAATATTTTTTTTAATAAAATAAGTTACACTTAAGAATGTCATGGTTTTGAATAGAAA
66 GTTATGTTAATA-TTTTTTTAATAAAATAAGTTACACCTAAGAATGTAATGGTTTTGAAGAGAAA
*
2399187 TGGTTGTGATATGTTATGTTAATAT
130 TGGTTGCGATATGTTATGTTAATAT
2399212 TTTTTTATGAATAAAATAGGTTGCGCCCAA
1 TTTTTT-T-AATAAAATAGGTTGCGCCCAA
2399242 AAAAACAATT
Statistics
Matches: 165, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
154 1 0.01
155 98 0.59
156 46 0.28
157 20 0.12
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.42
Consensus pattern (154 bp):
TTTTTTTAATAAAATAGGTTGCGCCCAAGAATGTCATGGTTTTAAATAGAAATAGATTGTAATAT
GTTATGTTAATATTTTTTTAATAAAATAAGTTACACCTAAGAATGTAATGGTTTTGAAGAGAAAT
GGTTGCGATATGTTATGTTAATAT
Found at i:2399296 original size:156 final size:155
Alignment explanation
Indices: 2398902--2399285 Score: 334
Period size: 155 Copynumber: 2.5 Consensus size: 155
2398892 AGAATGTTAA
* *** * ** *
2398902 TTTTTTTAATAAAATAGGTTGCGCCCTAGAATGTCATGGTTTTAAATATAAATAG--ATTG-TAA
1 TTTTTTTAATAAAATAGGTTGCGCCCAAGAAAAACA-GATTCAAAATAGAAATAGATATTGAT-A
* * * * *
2398964 TATGTTATGTTAAT-GATTTTTTAATAAAATAGGTTGCGCCTAAGAATGTAATGGTTTTGAAGAG
64 TATATTA--TTAATATATTTTTTAATAAAATAAGTTACACCTAAGAATGTAATGGTTTTGAAGAG
2399028 AAATTGGTTGCGATATGTTATGTTAATAT
127 AAATTGGTTGCGATATGTTATGTTAATAT
* *** * *** * *
2399057 TTTTTTTAATAAAATAGGTTGTGCCCAAGAATGTCATGGTTTTGAATAGAAATAGGTTTTGATAT
1 TTTTTTTAATAAAATAGGTTGCGCCCAAGAAAAACA-GATTCAAAATAGAAATAGATATTGATAT
* * * * * * *
2399122 GTTTTGTTAATATTTTTTTTAATAAAATAAGTTACACTTAAGAATGTCATGGTTTTGAATAGAAA
65 ATATTATTAATATATTTTTTAATAAAATAAGTTACACCTAAGAATGTAATGGTTTTGAAGAGAAA
*
2399187 -TGGTTGTGATATGTTATGTTAATAT
130 TTGGTTGCGATATGTTATGTTAATAT
**
2399212 TTTTTTATGAATAAAATAGGTTGCGCCCAA-AAAAACA-ATTCAAAATTTAAATATCGATATTGA
1 TTTTTT-T-AATAAAATAGGTTGCGCCCAAGAAAAACAGATTCAAAATAGAAATA--GATATTGA
2399275 -ATATATTATTA
62 TATATATTATTA
2399286 TCGATATTTT
Statistics
Matches: 189, Mismatches: 32, Indels: 16
0.80 0.14 0.07
Matches are distributed among these distances:
154 10 0.05
155 94 0.50
156 56 0.30
157 28 0.15
158 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (155 bp):
TTTTTTTAATAAAATAGGTTGCGCCCAAGAAAAACAGATTCAAAATAGAAATAGATATTGATATA
TATTATTAATATATTTTTTAATAAAATAAGTTACACCTAAGAATGTAATGGTTTTGAAGAGAAAT
TGGTTGCGATATGTTATGTTAATAT
Found at i:2400892 original size:54 final size:54
Alignment explanation
Indices: 2400826--2401247 Score: 592
Period size: 54 Copynumber: 7.8 Consensus size: 54
2400816 TTACAAAATA
* * * * *
2400826 GGCACTAAGTGTGTAATCCACGGAATTCATCATATGTTGATGAATAACCGTTTT
1 GGCACTATGTGTGCAACCCACGGAATTCATCATATGTTGATGAACAACCGTTTC
* * * *
2400880 GGCACTATGTGTGCAACACACGGAATTCATCATATGTTGATCAACAAACATTTC
1 GGCACTATGTGTGCAACCCACGGAATTCATCATATGTTGATGAACAACCGTTTC
* *
2400934 GACACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACCGTTTC
1 GGCACTATGTGTGCAACCCACGGAATTCATCATATGTTGATGAACAACCGTTTC
* *
2400988 GGCACTATGTGTGCAACCCACGAAATTCATCATATGTTGACGAACAACCGTTTC
1 GGCACTATGTGTGCAACCCACGGAATTCATCATATGTTGATGAACAACCGTTTC
* * **
2401042 AGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAACAACCGTTTC
1 GGCACTATGTGTGCAACCCACGGAATTCATCATATGTTGATGAACAACCGTTTC
* * *
2401096 GGCACTATGTGTGCAACCCACTGAATTCATCATATGTTGATGGACAACCATTTC
1 GGCACTATGTGTGCAACCCACGGAATTCATCATATGTTGATGAACAACCGTTTC
** *
2401150 GGCACTATGTGTGCAACCCATAGAATTCATCATATGTTGATGAACAACCATTTC
1 GGCACTATGTGTGCAACCCACGGAATTCATCATATGTTGATGAACAACCGTTTC
* * * * *
2401204 GGCACTATGTGTGCAAGCCACAGAATTCATAATAAGTTTATGAA
1 GGCACTATGTGTGCAACCCACGGAATTCATCATATGTTGATGAA
2401248 TTTTCGTATG
Statistics
Matches: 328, Mismatches: 40, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 328 1.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (54 bp):
GGCACTATGTGTGCAACCCACGGAATTCATCATATGTTGATGAACAACCGTTTC
Found at i:2400925 original size:28 final size:27
Alignment explanation
Indices: 2400893--2400979 Score: 65
Period size: 28 Copynumber: 3.2 Consensus size: 27
2400883 ACTATGTGTG
2400893 CAACACACGGAATTCATCATATGTTGAT
1 CAACACAC-GAATTCATCATATGTTGAT
* *
2400921 CAACAAAC-ATTTCGA-CACTATG-TG-T
1 CAACACACGAATTC-ATCA-TATGTTGAT
*
2400946 GCAACCCACAGAATTCATCATATGTTGAT
1 -CAACACAC-GAATTCATCATATGTTGAT
*
2400975 GAACA
1 CAACA
2400980 ACCGTTTCGG
Statistics
Matches: 44, Mismatches: 7, Indels: 16
0.66 0.10 0.24
Matches are distributed among these distances:
25 1 0.02
26 14 0.32
27 10 0.23
28 18 0.41
29 1 0.02
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (27 bp):
CAACACACGAATTCATCATATGTTGAT
Found at i:2401158 original size:27 final size:27
Alignment explanation
Indices: 2401128--2401213 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
2401118 GAATTCATCA
2401128 TATGTTGATGGACAACCATTTCGGCAC
1 TATGTTGATGGACAACCATTTCGGCAC
**
2401155 TATG-TG-T-G-CAACCCATAGAATTCATCA-
1 TATGTTGATGGACAA-CCAT----TTCGGCAC
*
2401182 TATGTTGATGAACAACCATTTCGGCAC
1 TATGTTGATGGACAACCATTTCGGCAC
2401209 TATGT
1 TATGT
2401214 GTGCAAGCCA
Statistics
Matches: 44, Mismatches: 5, Indels: 20
0.64 0.07 0.29
Matches are distributed among these distances:
23 3 0.07
24 5 0.11
25 1 0.02
26 7 0.16
27 13 0.30
28 7 0.16
29 1 0.02
30 4 0.09
31 3 0.07
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (27 bp):
TATGTTGATGGACAACCATTTCGGCAC
Found at i:2401263 original size:54 final size:55
Alignment explanation
Indices: 2401205--2401311 Score: 146
Period size: 55 Copynumber: 2.0 Consensus size: 55
2401195 AACCATTTCG
* *
2401205 GCACTATGTGTGC-AAGCCACAG-AATTCATAATAAGTTTATGAATTTTCGTATGA
1 GCACTATGTGTGCAAAACCA-AGAAATTCATAATAAGTTTATGAATTTCCGTATGA
* **
2401259 GCACTTTGTGTGCAAAATTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
1 GCACTATGTGTGCAAAACCAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
2401312 TGGTAGTGGG
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
54 14 0.30
55 32 0.70
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.36
Consensus pattern (55 bp):
GCACTATGTGTGCAAAACCAAGAAATTCATAATAAGTTTATGAATTTCCGTATGA
Found at i:2401655 original size:46 final size:46
Alignment explanation
Indices: 2401603--2401690 Score: 140
Period size: 46 Copynumber: 1.9 Consensus size: 46
2401593 TTAGATGAAG
* * * *
2401603 AACAATGCATAATTGGCATGAAATGATGCCATAAATGAAAATGTAT
1 AACAATGCATAATCGACATGAAAGGATGCCACAAATGAAAATGTAT
2401649 AACAATGCATAATCGACATGAAAGGATGCCACAAATGAAAAT
1 AACAATGCATAATCGACATGAAAGGATGCCACAAATGAAAAT
2401691 ACATAGCAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.22
Consensus pattern (46 bp):
AACAATGCATAATCGACATGAAAGGATGCCACAAATGAAAATGTAT
Found at i:2403519 original size:2 final size:2
Alignment explanation
Indices: 2403512--2403576 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
2403502 TGTCGGAAAG
2403512 AT AT 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 AT AT
2403554 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
2403577 GCTTTTATGG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2406194 original size:20 final size:20
Alignment explanation
Indices: 2406169--2406216 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
2406159 TAATAGTATT
2406169 GTTAGAGGTAAAAGTAAGAG
1 GTTAGAGGTAAAAGTAAGAG
2406189 GTTAGAGGTAAAAGTAAGAG
1 GTTAGAGGTAAAAGTAAGAG
*
2406209 ATTAGAGG
1 GTTAGAGG
2406217 GGAAAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.35, T:0.21
Consensus pattern (20 bp):
GTTAGAGGTAAAAGTAAGAG
Found at i:2406956 original size:54 final size:54
Alignment explanation
Indices: 2406865--2407278 Score: 479
Period size: 54 Copynumber: 7.7 Consensus size: 54
2406855 TAGGCAGTAA
* *
2406865 GTGTGCAATCCACGAAATTCATCATATGCTGATGAACAACCGTTTCGGCACTAT
1 GTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCGTTTCGGCACTAT
* * * * *
2406919 TTATACAACCCACGAAATTCATCATATATTGATGAACAACCATTTCGGCACTAT
1 GTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCGTTTCGGCACTAT
* ** * *
2406973 ATGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCGTTTCATCATTAA
1 GTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCGTTTCGGCACTAT
*** * *
2407027 GTGTGCAATTAACGGAATTCGTCATATGTTGATGAACAACCGTTTCGGCACTAT
1 GTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCGTTTCGGCACTAT
* * *
2407081 ATGTGCAACCCAC-AGAATTCATCATATGTTGATGAACAACCATTTCGACACTAT
1 GTGTGCAACCCACGA-AATTCATCATATGTTGATGAACAACCGTTTCGGCACTAT
* * * ** * * * *
2407135 GTGGGAAATCCAAAAAATTCATCATATATTGATGAACAACCATTTCAGCACTCT
1 GTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCGTTTCGGCACTAT
* * * *
2407189 GTGTGCAACCCACAAAATTCAGCATATGTTGAGGAACAACCGTTTTGGCACTAT
1 GTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCGTTTCGGCACTAT
* * * *
2407243 GTGTGCAACCCACAAAATTCATAATAAGTTTATGAA
1 GTGTGCAACCCACGAAATTCATCATATGTTGATGAA
2407279 TTTCTGTATA
Statistics
Matches: 299, Mismatches: 59, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
54 298 1.00
55 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (54 bp):
GTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCGTTTCGGCACTAT
Found at i:2406958 original size:31 final size:31
Alignment explanation
Indices: 2406923--2407013 Score: 74
Period size: 26 Copynumber: 3.2 Consensus size: 31
2406913 CACTATTTAT
2406923 ACAACCCACGAAATTCATCATATATTGATGA
1 ACAACCCACGAAATTCATCATATATTGATGA
* **
2406954 ACAA--C-C--ATTTCGGCACTATA-TG-TG-
1 ACAACCCACGAAATTCATCA-TATATTGATGA
*
2406978 -CAACCCACGAAATTCATCATATGTTGATGA
1 ACAACCCACGAAATTCATCATATATTGATGA
2407008 ACAACC
1 ACAACC
2407014 GTTTCATCAT
Statistics
Matches: 43, Mismatches: 7, Indels: 20
0.61 0.10 0.29
Matches are distributed among these distances:
23 3 0.07
25 3 0.07
26 9 0.21
27 7 0.16
28 9 0.21
29 3 0.07
31 9 0.21
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.25
Consensus pattern (31 bp):
ACAACCCACGAAATTCATCATATATTGATGA
Found at i:2407021 original size:26 final size:26
Alignment explanation
Indices: 2406990--2407072 Score: 71
Period size: 26 Copynumber: 3.1 Consensus size: 26
2406980 ACCCACGAAA
2406990 TTCATCATATGTTGATGAACAACCGT
1 TTCATCATATGTTGATGAACAACCGT
* * * *
2407016 TTCATCATTAAG-TG-TGCAATTAACGGAA
1 TTCATCA-TATGTTGATG-AA-CAACCG-T
*
2407044 TTCGTCATATGTTGATGAACAACCGT
1 TTCATCATATGTTGATGAACAACCGT
2407070 TTC
1 TTC
2407073 GGCACTATAT
Statistics
Matches: 42, Mismatches: 9, Indels: 12
0.67 0.14 0.19
Matches are distributed among these distances:
25 2 0.05
26 14 0.33
27 14 0.33
28 10 0.24
29 2 0.05
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (26 bp):
TTCATCATATGTTGATGAACAACCGT
Found at i:2407073 original size:26 final size:26
Alignment explanation
Indices: 2406994--2407073 Score: 65
Period size: 27 Copynumber: 3.0 Consensus size: 26
2406984 ACGAAATTCA
*
2406994 TCATATGTTGATGAACAACCGTTTCA
1 TCATATGTTGATGAACAACCGTTTCG
* * * *
2407020 TCATTAAG-TG-TGCAATTAACGGAATTCG
1 TCA-TATGTTGATG-AA-CAACCG-TTTCG
2407048 TCATATGTTGATGAACAACCGTTTCG
1 TCATATGTTGATGAACAACCGTTTCG
2407074 GCACTATATG
Statistics
Matches: 39, Mismatches: 9, Indels: 12
0.65 0.15 0.20
Matches are distributed among these distances:
25 2 0.05
26 11 0.28
27 14 0.36
28 10 0.26
29 2 0.05
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (26 bp):
TCATATGTTGATGAACAACCGTTTCG
Found at i:2408602 original size:101 final size:101
Alignment explanation
Indices: 2408464--2408898 Score: 382
Period size: 101 Copynumber: 4.3 Consensus size: 101
2408454 TTGTATTATA
* * * **
2408464 TTTA-ATAATATAAATGGTTT-AATACCTATAACCTAAACGGTTAACAATTAGGAAAGGCGCTAC
1 TTTACATAATATAAAAGGTTTCAA-ACATATAACCTAAACGGTTGACAATTAAAAAAGGCGCTAC
* * *
2408527 CTACAATGTTATACTCATAAACTTGTTTTGTCTTACT
65 CTATAATGTTATACTTATAAACCTGTTTTGTCTTACT
* * * * *
2408564 TTTACATAATATAAAAGGTTTCAAACATATCACGTAAACAGTTGATAATTAAAAAAGGCTCTACC
1 TTTACATAATATAAAAGGTTTCAAACATATAACCTAAACGGTTGACAATTAAAAAAGGCGCTACC
*
2408629 TATAATGTTATGCTTATAAACCTGTTTTGTCTTACT
66 TATAATGTTATACTTATAAACCTGTTTTGTCTTACT
*** * * * *
2408665 TTTACATAATA-AAAAAAATTCAAAGATATAACCTAAATGGTTGACAATTAAAAATAGACGCAAC
1 TTTACATAATATAAAAGGTTTCAAACATATAACCTAAACGGTTGACAATTAAAAA-AGGCGCTAC
*
2408729 CTATAATATTA-AGCTTATAAACCTGTTTTGTCTTACT
65 CTATAATGTTATA-CTTATAAACCTGTTTTGTCTTACT
* ***** * * ** * * *
2408766 TTTTCATAATA-ATTTTTTTTTCAAGCATGTAATGTAAACGGTTGACGATTTAAAAAGGC-ATGA
1 TTTACATAATATA-AAAGGTTTCAAACATATAACCTAAACGGTTGACAATTAAAAAAGGCGCT-A
* * * *
2408829 CCTAGAATGTTGA-ACTTATAAACCTGATTTGTCTCAAT
64 CCTATAATGTT-ATACTTATAAACCTGTTTTGTCTTACT
* *
2408867 TTTTCATACTATAAATA-GTTTCAAACATATAA
1 TTTACATAATATAAA-AGGTTTCAAACATATAA
2408899 TGTAGACGGG
Statistics
Matches: 268, Mismatches: 58, Indels: 17
0.78 0.17 0.05
Matches are distributed among these distances:
100 38 0.14
101 197 0.74
102 33 0.12
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.36
Consensus pattern (101 bp):
TTTACATAATATAAAAGGTTTCAAACATATAACCTAAACGGTTGACAATTAAAAAAGGCGCTACC
TATAATGTTATACTTATAAACCTGTTTTGTCTTACT
Found at i:2409226 original size:19 final size:19
Alignment explanation
Indices: 2409202--2409310 Score: 101
Period size: 19 Copynumber: 5.4 Consensus size: 19
2409192 TTATTTTGGA
2409202 TTTTTCACTATCGCAACAC
1 TTTTTCACTATCGCAACAC
2409221 TTTTTCACTATCGCAACAACAC
1 TTTTTCACTATCG---CAACAC
* *
2409243 GTTTTTCAAACTCTTGCAACAC
1 -TTTTTC--ACTATCGCAACAC
* *
2409265 ATTTTAACTATCGCAACAC
1 TTTTTCACTATCGCAACAC
* *
2409284 ATTTTAACTATCGCAACAC
1 TTTTTCACTATCGCAACAC
2409303 ATTTTTCA
1 -TTTTTCA
2409311 AATCTGGATA
Statistics
Matches: 75, Mismatches: 8, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
19 43 0.57
20 5 0.07
21 4 0.05
22 12 0.16
23 6 0.08
25 5 0.07
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.36
Consensus pattern (19 bp):
TTTTTCACTATCGCAACAC
Found at i:2410579 original size:3 final size:3
Alignment explanation
Indices: 2410567--2410629 Score: 58
Period size: 3 Copynumber: 21.7 Consensus size: 3
2410557 AATTTTTGCC
* * * * *
2410567 TAT T-T TAT TAT TAT AAT TAT TAT AAT TGT TAT AAT TAT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
2410614 TAT TA- TAT TTT TAT TA
1 TAT TAT TAT TAT TAT TA
2410630 ATAAATATTT
Statistics
Matches: 46, Mismatches: 12, Indels: 4
0.74 0.19 0.06
Matches are distributed among these distances:
2 4 0.09
3 42 0.91
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:2410616 original size:18 final size:17
Alignment explanation
Indices: 2410567--2410616 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
2410557 AATTTTTGCC
*
2410567 TATTTTATTATTATAAT
1 TATTATATTATTATAAT
*
2410584 TATTATAATTGTTATAAT
1 TATTAT-ATTATTATAAT
2410602 TATTACTATTATTAT
1 TATTA-TATTATTAT
2410617 TATATTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 5 0.18
18 22 0.79
19 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (17 bp):
TATTATATTATTATAAT
Found at i:2411520 original size:18 final size:18
Alignment explanation
Indices: 2411497--2411540 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
2411487 TTTAGAAAGA
2411497 GAGAAAGAAGGAAGAAAT
1 GAGAAAGAAGGAAGAAAT
2411515 GAGAAAGAAGGAAGAAAT
1 GAGAAAGAAGGAAGAAAT
2411533 GAGAAAGA
1 GAGAAAGA
2411541 TTTGCCCAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.34, T:0.05
Consensus pattern (18 bp):
GAGAAAGAAGGAAGAAAT
Found at i:2412995 original size:24 final size:21
Alignment explanation
Indices: 2412944--2413004 Score: 52
Period size: 24 Copynumber: 2.7 Consensus size: 21
2412934 CATATATTTA
*
2412944 ATTTATAATTCTT-TTTTATAT
1 ATTTAT-ATTATTATTTTATAT
*
2412965 ATATATACTTATTATTTTCATAGT
1 ATTTATA-TTATTATTTT-ATA-T
2412989 ATTTATATATATTATT
1 ATTTATAT-TATTATT
2413005 AATATTTCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 1 0.03
21 9 0.28
22 4 0.12
23 4 0.12
24 14 0.44
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.61
Consensus pattern (21 bp):
ATTTATATTATTATTTTATAT
Found at i:2414667 original size:26 final size:26
Alignment explanation
Indices: 2414630--2414702 Score: 92
Period size: 27 Copynumber: 2.8 Consensus size: 26
2414620 ATTTTTATTG
* *
2414630 TTACATTCACATATTTACATTTGCAT
1 TTACATTTACATTTTTACATTTGCAT
* *
2414656 TTACATTTACATTTTTTACGTTTGTAT
1 TTACATTTACA-TTTTTACATTTGCAT
*
2414683 TTACATTTTCATTTTTACAT
1 TTACATTTACATTTTTACAT
2414703 AATTACATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
26 18 0.45
27 22 0.55
ACGTcount: A:0.26, C:0.15, G:0.04, T:0.55
Consensus pattern (26 bp):
TTACATTTACATTTTTACATTTGCAT
Found at i:2416995 original size:13 final size:13
Alignment explanation
Indices: 2416969--2417051 Score: 54
Period size: 11 Copynumber: 6.8 Consensus size: 13
2416959 TCCAGCAAAG
* *
2416969 AAAGAATAATGAA
1 AAAGAAAAAAGAA
2416982 AAAGAAAAAAG--
1 AAAGAAAAAAGAA
2416993 AAAGAAAACAA-AA
1 AAAGAAAA-AAGAA
*
2417006 AAAGAAAACA-AA
1 AAAGAAAAAAGAA
*
2417018 ACA-AAAAAAG-A
1 AAAGAAAAAAGAA
*
2417029 AAA-AAAAATGAA
1 AAAGAAAAAAGAA
2417041 AAATGAAAAAA
1 AAA-GAAAAAA
2417052 AGGAGAAATT
Statistics
Matches: 55, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
11 22 0.40
12 11 0.20
13 17 0.31
14 5 0.09
ACGTcount: A:0.81, C:0.04, G:0.11, T:0.05
Consensus pattern (13 bp):
AAAGAAAAAAGAA
Found at i:2416999 original size:17 final size:16
Alignment explanation
Indices: 2416980--2417052 Score: 67
Period size: 17 Copynumber: 4.2 Consensus size: 16
2416970 AAGAATAATG
2416980 AAAAAGAAAAAAGAAA
1 AAAAAGAAAAAAGAAA
2416996 GAAAACA-AAAAAAGAAA
1 -AAAA-AGAAAAAAGAAA
*
2417013 ACAAAACAAAAAAAGAAAA
1 A-AAAA-GAAAAAAG-AAA
*
2417032 AAAAATGAAAAATGAAA
1 AAAAA-GAAAAAAGAAA
2417049 AAAA
1 AAAA
2417053 GGAGAAATTG
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
16 2 0.04
17 24 0.50
18 18 0.38
19 4 0.08
ACGTcount: A:0.84, C:0.04, G:0.10, T:0.03
Consensus pattern (16 bp):
AAAAAGAAAAAAGAAA
Found at i:2417036 original size:18 final size:18
Alignment explanation
Indices: 2416986--2417052 Score: 82
Period size: 18 Copynumber: 3.8 Consensus size: 18
2416976 AATGAAAAAG
*
2416986 AAAAAAG-AAAGAAAACA
1 AAAAAAGAAAAAAAAACA
*
2417003 AAAAAAGAAAACAAAACA
1 AAAAAAGAAAAAAAAACA
**
2417021 AAAAAAGAAAAAAAAATG
1 AAAAAAGAAAAAAAAACA
*
2417039 AAAAATGAAAAAAA
1 AAAAAAGAAAAAAA
2417053 GGAGAAATTG
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
17 7 0.16
18 37 0.84
ACGTcount: A:0.84, C:0.04, G:0.09, T:0.03
Consensus pattern (18 bp):
AAAAAAGAAAAAAAAACA
Found at i:2417052 original size:10 final size:10
Alignment explanation
Indices: 2416980--2417043 Score: 60
Period size: 11 Copynumber: 6.1 Consensus size: 10
2416970 AAGAATAATG
2416980 AAAAAGAAAA
1 AAAAAGAAAA
2416990 AAGAAAGAAAA
1 AA-AAAGAAAA
2417001 CAAAAA-AAGAA
1 -AAAAAGAA-AA
*
2417012 AACAAA-ACAA
1 AA-AAAGAAAA
2417022 AAAAAGAAAA
1 AAAAAGAAAA
2417032 AAAAATGAAAA
1 AAAAA-GAAAA
2417043 A
1 A
2417044 TGAAAAAAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
9 3 0.07
10 18 0.39
11 23 0.50
12 2 0.04
ACGTcount: A:0.84, C:0.05, G:0.09, T:0.02
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:2422192 original size:22 final size:22
Alignment explanation
Indices: 2422160--2422238 Score: 131
Period size: 22 Copynumber: 3.6 Consensus size: 22
2422150 ACATCTACAT
2422160 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
2422182 TCTTCAGAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
2422204 TCTTTAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
2422226 TTTTCAAAGATGA
1 TCTTCAAAGATGA
2422239 AAGCTTTATT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:2423036 original size:76 final size:76
Alignment explanation
Indices: 2422910--2423091 Score: 267
Period size: 76 Copynumber: 2.4 Consensus size: 76
2422900 CTATTTCTCA
* *
2422910 CATCTGTAAGTCCTACAATGCATGATGTTTCCAAAAATCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
2422975 AGCCTTAGGGT
66 AACCTTAGGGT
* * *
2422986 CATCTATAAGTTCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
2423051 AACCTTCGGGT
66 AACCTTAGGGT
* *
2423062 CAGCTGTAAGCCCTACAGTGCA-GAATGTTT
1 CATCTGTAAGTCCTACAGTGCATG-ATGTTT
2423092 TTTTCTTAAA
Statistics
Matches: 94, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
75 1 0.01
76 93 0.99
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AACCTTAGGGT
Found at i:2423311 original size:112 final size:114
Alignment explanation
Indices: 2423114--2423780 Score: 679
Period size: 124 Copynumber: 5.6 Consensus size: 114
2423104 ATTTCTAGGT
2423114 AGAGTTCATAATGAGAAGAACTCA-CTTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
1 AGAGTTCATAATGAGAAGAACTCATC-TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
* *** *
2423178 TTCAACTTTTTGCTTGAATTCAT-C-ATTCGATGGATCGACATTTCCAGA
65 TTCAACCTTTTGCTTGAATTCATACAAGGAGATAGATCGACATTTCCAGA
2423226 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
1 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
* * * * * *
2423291 TCAATCTTTTGCTTGAATTCAT-CACA--CGATGGATCAACATTGCCAGGT
66 TCAACCTTTTGCTTGAATTCATACA-AGGAGATAGATCGACATTTCCA-GA
*
2423339 AGAGTTCATAATGAGAAAAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
1 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
* * * *
2423404 TCAATCTTTTTCATG-ATTCTATCACAGAAGGAGATAGATCAGCATTAATTTTTCCAGA
66 TCAACCTTTTGCTTGAATTC-AT-AC--AAGGAGATAGATC-G-A--CA--TTTCCAGA
* * *
2423462 GAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAATAACTTA
1 -AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
* *
2423527 TTCAACCTTTTGCATG-ACTCTATCACAGAAGGAGATAGATCAGCATCAATTTTTCCAGA
65 TTCAACCTTTTGCTTGAATTC-AT-AC--AAGGAGATAGATC-G-A-C-A--TTTCCAGA
* * *
2423586 GAAAGTTCATAATGAGAAGAAGTCATCTGAAGAAGGAAGAAG-AGTTCATAATGAGAAGAGCTTG
1 -AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
* * * *
2423650 TTCAACCTTTTGTTTGACTTTATCACAGAAGGAGATAGATCAACATCAACATTTCCAGA
65 TTCAACCTTTTGCTTGAATTCAT-AC--AAGGAGATAG------ATCGACATTTCCAGA
* * *
2423709 AGTGTTCATAATGAGAAGAACTCATCTGAAGAAGG-AGAAGAAATTCATAATGAGAAGAATTTGT
1 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
2423773 TCAACCTT
66 TCAACCTT
2423781 GCCTTAATTT
Statistics
Matches: 490, Mismatches: 38, Indels: 44
0.86 0.07 0.08
Matches are distributed among these distances:
112 105 0.21
113 81 0.17
114 1 0.00
115 1 0.00
116 1 0.00
117 1 0.00
118 7 0.01
120 1 0.00
121 5 0.01
122 61 0.12
123 60 0.12
124 160 0.33
125 1 0.00
126 1 0.00
127 1 0.00
129 3 0.01
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (114 bp):
AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
TCAACCTTTTGCTTGAATTCATACAAGGAGATAGATCGACATTTCCAGA
Found at i:2423382 original size:225 final size:229
Alignment explanation
Indices: 2423101--2423780 Score: 725
Period size: 225 Copynumber: 2.9 Consensus size: 229
2423091 TTTTTCTTAA
*
2423101 AACATTTCTAGGTAGAGTTCATAATGAGAAGAACTCA-CTTGAAGAAGGAAGAAGAAGTTCATAA
1 AACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATC-TGAAGAAGGAAGAAGAAGTTCATAA
* * *
2423165 TGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCAT-C-ATTCGATGGATCGACATTTCCAGAAG
65 TGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATACAAATAGATAGATCGACATTTCCAGAAG
2423228 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
130 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * * *
2423293 AATCTTTTGCTTGAAT-TCATCAC-A-CGATGGATC
195 AACCTTTTGCATGACTCT-ATCACAAGAGATAGATC
* *
2423326 AACATTGCCAGGTAGAGTTCATAATGAGAAAAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
1 AACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
* * *
2423391 GAGAAGAACTTGTTCAATCTTTTT-CATG-ATTCTATCACAGAAGGAGATAGATCAGCATTAATT
66 GAGAAGAACTTGTTCAA-CTTTTTGCTTGAATTC-AT-ACA-AA-TAGATAGATC-G-A--CA--
*
2423454 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
120 TTTCCAGA-AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
* *
2423519 ATAACTTATTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATC
184 AGAACTTGTTCAACCTTTTGCATGACTCTATCAC--AA-GAGATAGATC
* *
2423568 AGCATCAATTTTTCCAGAG-AAAGTTCATAATGAGAAGAAGTCATCTGAAGAAGGAAGAAG-AGT
1 A--A-C-A--TTTCCAG-GTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
* * * * * *
2423631 TCATAATGAGAAGAGCTTGTTCAACCTTTTGTTTGACTTTATCACAGAAGGAGATAGATCAACAT
59 TCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCAT-AC---A--A-ATAGAT--AGAT
* * *
2423696 CAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAAGG-AGAAGAAATTCATAAT
115 CGACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
*
2423760 GAGAAGAATTTGTTCAACCTT
180 GAGAAGAACTTGTTCAACCTT
2423781 GCCTTAATTT
Statistics
Matches: 381, Mismatches: 37, Indels: 54
0.81 0.08 0.11
Matches are distributed among these distances:
224 4 0.01
225 82 0.22
226 7 0.02
227 1 0.00
229 1 0.00
230 7 0.02
231 1 0.00
232 1 0.00
234 1 0.00
236 8 0.02
237 82 0.22
238 1 0.00
240 1 0.00
242 8 0.02
244 1 0.00
245 34 0.09
246 39 0.10
247 41 0.11
248 46 0.12
249 2 0.01
250 1 0.00
251 7 0.02
252 1 0.00
253 4 0.01
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (229 bp):
AACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
GAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATACAAATAGATAGATCGACATTTCCAGAAGA
GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
ACCTTTTGCATGACTCTATCACAAGAGATAGATC
Found at i:2424090 original size:3 final size:3
Alignment explanation
Indices: 2424078--2424156 Score: 63
Period size: 3 Copynumber: 26.7 Consensus size: 3
2424068 AATTTTTGCC
* * * * *
2424078 TAT T-T TAT TAT TAT AAT TAT TAT AAT TGT TAT AAT TAT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
2424125 TAT TA- TAT TTT TAT TAAT AAA TAT TAT TAT TA
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TA
2424157 CATATTACAG
Statistics
Matches: 57, Mismatches: 16, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
2 4 0.07
3 51 0.89
4 2 0.04
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:2425959 original size:122 final size:122
Alignment explanation
Indices: 2425739--2425959 Score: 302
Period size: 122 Copynumber: 1.8 Consensus size: 122
2425729 TATATTTATC
* *
2425739 AATATTAAGAAAGGACAGTCTTAAAGCAACTGGATGTCCATTTTCTGATATTTTTAAATAAAAAA
1 AATATTAAGAAAGGACAGTCTTAAAGCAACTAGAAGTCCATTTTCTGATATTTTTAAATAAAAAA
* * * *
2425804 ATAAATATTTTAATATATAAATCTGTTTTTATATTATTAAAATTTATTTATTTTTTT
66 ATAAATATTTTAATATATAAATATATATATATATTATTAAAATTTATTTATTTTTTT
* * *
2425861 AATATTAAGAAAGGAGCAGTCTTAAAGCACCTAGAAG-CCCTTTTCTGATATTTTTAAATAAATA
1 AATATTAAGAAAGGA-CAGTCTTAAAGCAACTAGAAGTCCATTTTCTGATATTTTTAAATAAAAA
** *
2425925 AATATCT-TGTTTAATATATATATATATATATATAT
65 AATAAATAT-TTTAATATATAAATATATATATATAT
2425960 ATTGTCTTAA
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
121 1 0.01
122 66 0.78
123 18 0.21
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.42
Consensus pattern (122 bp):
AATATTAAGAAAGGACAGTCTTAAAGCAACTAGAAGTCCATTTTCTGATATTTTTAAATAAAAAA
ATAAATATTTTAATATATAAATATATATATATATTATTAAAATTTATTTATTTTTTT
Found at i:2428288 original size:23 final size:23
Alignment explanation
Indices: 2428238--2428294 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
2428228 TTGTCCCGAT
* **
2428238 GGACCACATAGTTTTGTTATGAA
1 GGACCACATAGTTTTGTCACAAA
*
2428261 GGACCACATAGTTTTGTCCCAAA
1 GGACCACATAGTTTTGTCACAAA
*
2428284 TGACCACATAG
1 GGACCACATAG
2428295 AACCCTCGAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (23 bp):
GGACCACATAGTTTTGTCACAAA
Found at i:2435074 original size:23 final size:23
Alignment explanation
Indices: 2435028--2435125 Score: 128
Period size: 23 Copynumber: 4.3 Consensus size: 23
2435018 CACCGATGTG
**
2435028 CCACATA-TTTT-TCCCGAATTA
1 CCACATAGTTTTGTCCCGAAGGA
2435049 CCACATAGTTTTGTCCCGAAGGA
1 CCACATAGTTTTGTCCCGAAGGA
* * *
2435072 CCACATTGTTTTGTCCCAAAAGA
1 CCACATAGTTTTGTCCCGAAGGA
*
2435095 CCACATAGTTTTATCCCGAAGGA
1 CCACATAGTTTTGTCCCGAAGGA
2435118 CCACATAG
1 CCACATAG
2435126 AACCCTCGAC
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
21 7 0.11
22 4 0.06
23 55 0.83
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (23 bp):
CCACATAGTTTTGTCCCGAAGGA
Found at i:2436739 original size:21 final size:22
Alignment explanation
Indices: 2436691--2436743 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
2436681 TACTCGGGGT
*
2436691 AGTATCGATACTCTCATATAGA
1 AGTATCGATACTCACATATAGA
*
2436713 ATTATCGATACT-ACA-ACTAGA
1 AGTATCGATACTCACATA-TAGA
2436734 AGTATCGATA
1 AGTATCGATA
2436744 TTAAGGGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.04
21 15 0.56
22 11 0.41
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (22 bp):
AGTATCGATACTCACATATAGA
Found at i:2440929 original size:22 final size:22
Alignment explanation
Indices: 2440901--2440942 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
2440891 CACTGGTTAT
*
2440901 TATATATAATGTTTATCATGAA
1 TATATATAATATTTATCATGAA
*
2440923 TATATATGATATTTATCATG
1 TATATATAATATTTATCATG
2440943 CATGTTATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.48
Consensus pattern (22 bp):
TATATATAATATTTATCATGAA
Found at i:2452637 original size:20 final size:20
Alignment explanation
Indices: 2452588--2452638 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
2452578 TTTCCGACTT
*
2452588 TCGCAATGCAAATATGTAAA
1 TCGCAATGCGAATATGTAAA
2452608 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATATGTAAA
2452628 TCGCAATGCGA
1 TCGCAATGCGA
2452639 TTCTGACTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.24
Consensus pattern (20 bp):
TCGCAATGCGAATATGTAAA
Found at i:2452650 original size:20 final size:20
Alignment explanation
Indices: 2452627--2452714 Score: 140
Period size: 20 Copynumber: 4.4 Consensus size: 20
2452617 GAATATGTAA
*
2452627 ATCGCAATGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
2452647 ATCGCAATGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
2452667 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
2452687 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
2452707 GTCGCAAC
1 ATCGCAAC
2452715 ACTGAATTTC
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 64 1.00
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:2452651 original size:40 final size:40
Alignment explanation
Indices: 2452607--2452698 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 40
2452597 AAATATGTAA
* *
2452607 ATCGCAATGCGAATATGTA-AATCGCAATGCGATTCTGACT
1 ATCGCAATGCGAATATG-ACAATCGCAACGAGATTCTGACT
* * *
2452647 ATCGCAATGCGATTCTGACTATCGCAACGAGATTCTGACT
1 ATCGCAATGCGAATATGACAATCGCAACGAGATTCTGACT
*
2452687 ATCGCAACGCGA
1 ATCGCAATGCGA
2452699 TTCTGACTGT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 1 0.02
40 44 0.98
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (40 bp):
ATCGCAATGCGAATATGACAATCGCAACGAGATTCTGACT
Found at i:2453571 original size:24 final size:24
Alignment explanation
Indices: 2453539--2453589 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
2453529 TTCAAAATTG
2453539 GATCTTGGTCAATACCCGGACTTT
1 GATCTTGGTCAATACCCGGACTTT
* *
2453563 GATCTTGGTCAATACTCGGATTTT
1 GATCTTGGTCAATACCCGGACTTT
2453587 GAT
1 GAT
2453590 GATGTTTCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (24 bp):
GATCTTGGTCAATACCCGGACTTT
Found at i:2456181 original size:140 final size:140
Alignment explanation
Indices: 2455926--2456195 Score: 504
Period size: 140 Copynumber: 1.9 Consensus size: 140
2455916 AAACGTTGTA
2455926 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
*
2455991 TGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
66 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
2456056 TATGTGTATT
131 TATGTGTATT
2456066 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
* * *
2456131 TGATATGTTTAGTTGTTATCACTTATTACACATTCATTTGAATATTGCAACGCGAGTTTGACTAT
66 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
2456196 CGCAACGCGA
Statistics
Matches: 126, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 126 1.00
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.43
Consensus pattern (140 bp):
TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
TATGTGTATT
Found at i:2456200 original size:20 final size:20
Alignment explanation
Indices: 2456166--2456468 Score: 206
Period size: 20 Copynumber: 16.4 Consensus size: 20
2456156 TTACACATTC
* *
2456166 ATTTGAATATTGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
2456186 GTTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
2456206 ATTTGATTATCGCAACTC-A
1 ATTTGACTATCGCAACGCGA
*
2456225 A----A-AATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
2456240 ATTTGACTATCGCAACACGA
1 ATTTGACTATCGCAACGCGA
*
2456260 ATATGACTATCGCAACGC-A
1 ATTTGACTATCGCAACGCGA
* **
2456279 A----A-AATTACAACGCGA
1 ATTTGACTATCGCAACGCGA
2456294 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* * *
2456314 ATTTGATTATCGCAACGGGT
1 ATTTGACTATCGCAACGCGA
* *
2456334 ATTTGACTATCGTAACGAGA
1 ATTTGACTATCGCAACGCGA
2456354 A----A--ATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
2456368 ATTTGACTATCACAACGCGA
1 ATTTGACTATCGCAACGCGA
* * * *
2456388 ATTTGATTATCACAACGGGT
1 ATTTGACTATCGCAACGCGA
*
2456408 ATTTGACTATCGCAACGAGA
1 ATTTGACTATCGCAACGCGA
* *
2456428 A----A--ATCGCAAAGCGT
1 ATTTGACTATCGCAACGCGA
*
2456442 ATTAGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
2456462 A-TTGACT
1 ATTTGACT
2456469 TCCGCGTTGC
Statistics
Matches: 218, Mismatches: 41, Indels: 49
0.71 0.13 0.16
Matches are distributed among these distances:
14 38 0.17
15 6 0.03
16 2 0.01
18 2 0.01
19 11 0.05
20 159 0.73
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:2456261 original size:54 final size:54
Alignment explanation
Indices: 2456177--2456330 Score: 245
Period size: 54 Copynumber: 2.9 Consensus size: 54
2456167 TTTGAATATT
* *
2456177 GCAACGCGAGTTTGACTATCGCAACGCGAATTTGATTATCGCAACTCAAAAATC
1 GCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACGCAAAAATC
* * * *
2456231 GCAACGCGAATTTGACTATCGCAACACGAATATGACTATCGCAACGCAAAAATT
1 GCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACGCAAAAATC
*
2456285 ACAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACG
1 GCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACG
2456331 GGTATTTGAC
Statistics
Matches: 90, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 90 1.00
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (54 bp):
GCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACGCAAAAATC
Found at i:2456306 original size:74 final size:74
Alignment explanation
Indices: 2456228--2456468 Score: 333
Period size: 74 Copynumber: 3.3 Consensus size: 74
2456218 CAACTCAAAA
** * * **
2456228 ATCGCAACGCGAATTTGACTATCGCAACACGAATATGACTATCGCAACGCA-AAAATTACAACGC
1 ATCGCAACGCGAATTTGACTATCGCAACGGGTATTTGACTATCGCAACG-AGAAAATCGCAACGC
2456292 GAATTTGACT
65 GAATTTGACT
* *
2456302 ATCGCAACGCGAATTTGATTATCGCAACGGGTATTTGACTATCGTAACGAGAAAATCGCAACGCG
1 ATCGCAACGCGAATTTGACTATCGCAACGGGTATTTGACTATCGCAACGAGAAAATCGCAACGCG
2456367 AATTTGACT
66 AATTTGACT
* * * *
2456376 ATCACAACGCGAATTTGATTATCACAACGGGTATTTGACTATCGCAACGAGAAAATCGCAAAGCG
1 ATCGCAACGCGAATTTGACTATCGCAACGGGTATTTGACTATCGCAACGAGAAAATCGCAACGCG
* *
2456441 TATTAGACT
66 AATTTGACT
2456450 ATCGCAACGCGAA-TTGACT
1 ATCGCAACGCGAATTTGACT
2456469 TCCGCGTTGC
Statistics
Matches: 150, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
73 6 0.04
74 144 0.96
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (74 bp):
ATCGCAACGCGAATTTGACTATCGCAACGGGTATTTGACTATCGCAACGAGAAAATCGCAACGCG
AATTTGACT
Found at i:2456450 original size:34 final size:34
Alignment explanation
Indices: 2456248--2456458 Score: 154
Period size: 34 Copynumber: 5.9 Consensus size: 34
2456238 GAATTTGACT
* * *
2456248 ATCGCAACACGAATATGACTATCGCAACGCA-AAA
1 ATCGCAACGCGTATTTGACTATCGCAACG-AGAAA
** * *
2456282 ATTACAACGCGAATTTGACTATCGCAACGCGAATTTGA
1 ATCGCAACGCGTATTTGACTATCGCAACGAGAA----A
* *
2456320 TTATCGCAACGGGTATTTGACTATCGTAACGAGAAA
1 --ATCGCAACGCGTATTTGACTATCGCAACGAGAAA
* * *
2456356 ATCGCAACGCGAATTTGACTATCACAACGCGAATTTGA
1 ATCGCAACGCGTATTTGACTATCGCAACGAGAA----A
* *
2456394 TTATCACAACGGGTATTTGACTATCGCAACGAGAAA
1 --ATCGCAACGCGTATTTGACTATCGCAACGAGAAA
* *
2456430 ATCGCAAAGCGTATTAGACTATCGCAACG
1 ATCGCAACGCGTATTTGACTATCGCAACG
2456459 CGAATTGACT
Statistics
Matches: 139, Mismatches: 25, Indels: 26
0.73 0.13 0.14
Matches are distributed among these distances:
34 80 0.58
36 2 0.01
38 2 0.01
40 55 0.40
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (34 bp):
ATCGCAACGCGTATTTGACTATCGCAACGAGAAA
Found at i:2456679 original size:14 final size:14
Alignment explanation
Indices: 2456619--2456680 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
2456609 AACAAATAAG
*
2456619 AATTATTTACACATC
1 AATT-TTTACAAATC
**
2456634 AATATTAAACAAATC
1 AAT-TTTTACAAATC
*
2456649 AACTTTTACAAATC
1 AATTTTTACAAATC
*
2456663 AATTTTTATAAATC
1 AATTTTTACAAATC
2456677 AATT
1 AATT
2456681 AAACAAGCAA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
14 25 0.66
15 12 0.32
16 1 0.03
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.39
Consensus pattern (14 bp):
AATTTTTACAAATC
Found at i:2458711 original size:20 final size:19
Alignment explanation
Indices: 2458686--2458741 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
2458676 TCGCAACACG
2458686 AATGACTATCGCAACGCGAA
1 AATGACTATCGCAACGC-AA
* *
2458706 AATGACTGTCACAACGCAA
1 AATGACTATCGCAACGCAA
*
2458725 ATTTGACTATCGCAACG
1 A-ATGACTATCGCAACG
2458742 AGAGAATCAC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 3 0.10
20 27 0.90
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.20
Consensus pattern (19 bp):
AATGACTATCGCAACGCAA
Found at i:2459100 original size:21 final size:21
Alignment explanation
Indices: 2459086--2459126 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2459076 GCTACCATCT
2459086 CACGTAGAGCGGCTACCTCAC
1 CACGTAGAGCGGCTACCTCAC
* *
2459107 CACGTAGAGTGACTACCTCA
1 CACGTAGAGCGGCTACCTCA
2459127 ATACACCATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.34, G:0.22, T:0.17
Consensus pattern (21 bp):
CACGTAGAGCGGCTACCTCAC
Found at i:2460732 original size:20 final size:20
Alignment explanation
Indices: 2460709--2460815 Score: 119
Period size: 20 Copynumber: 5.5 Consensus size: 20
2460699 TCTGAAACTT
*
2460709 AAAATCGCAACACGAAAATG
1 AAAATCGCAACGCGAAAATG
*
2460729 AAAATCGCAACACGAAAATG
1 AAAATCGCAACGCGAAAATG
** **
2460749 ACTATCGCAACGCGAATTTG
1 AAAATCGCAACGCGAAAATG
**
2460769 ACTATCGCAACGCG-AAATG
1 AAAATCGCAACGCGAAAATG
*
2460788 AAAATCGCAACGCGAAACT-
1 AAAATCGCAACGCGAAAATG
2460807 AAAATCGCA
1 AAAATCGCA
2460816 TTGTGATTCT
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
19 24 0.32
20 52 0.68
ACGTcount: A:0.46, C:0.23, G:0.17, T:0.14
Consensus pattern (20 bp):
AAAATCGCAACGCGAAAATG
Found at i:2461225 original size:22 final size:22
Alignment explanation
Indices: 2461195--2461251 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
2461185 GATGGAGATA
*
2461195 GACGGATTTCGCCAGAGATGGG
1 GACGGATTTCGCCAGACATGGG
* * *
2461217 GACTGATTTCGTCGGACATGGG
1 GACGGATTTCGCCAGACATGGG
*
2461239 GACGGATGTCGCC
1 GACGGATTTCGCC
2461252 TTAGAGAGTG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.19, C:0.21, G:0.39, T:0.21
Consensus pattern (22 bp):
GACGGATTTCGCCAGACATGGG
Found at i:2461446 original size:20 final size:20
Alignment explanation
Indices: 2461416--2461509 Score: 134
Period size: 20 Copynumber: 4.7 Consensus size: 20
2461406 GTGCTTTGAA
*
2461416 AATCGCATTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
*
2461436 CATCGCGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
*
2461456 CATCGCGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
* *
2461476 AATCGCGTTGCGATAATCAT
1 AATCGCGTTGCGATAGTCAG
*
2461496 AATCGCATTGCGAT
1 AATCGCGTTGCGAT
2461510 TTACATATTT
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 68 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.27
Consensus pattern (20 bp):
AATCGCGTTGCGATAGTCAG
Found at i:2461850 original size:2 final size:2
Alignment explanation
Indices: 2461839--2461913 Score: 109
Period size: 2 Copynumber: 38.0 Consensus size: 2
2461829 GTAGTTGCAG
* *
2461839 TA TA TA -A TA TA TA TA TA TA TA TA TA CA TG TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2461880 TA TA TA TA TA TA TA GT- 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
2461914 CATGTATACT
Statistics
Matches: 66, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
1 2 0.03
2 63 0.95
3 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2467289 original size:21 final size:21
Alignment explanation
Indices: 2467265--2467311 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
2467255 TTATATAATC
*
2467265 TAAAAATA-AAATTTAAAAGTA
1 TAAAAATATAAA-ATAAAAGTA
*
2467286 TAAAAATATAAAATAAAATTA
1 TAAAAATATAAAATAAAAGTA
2467307 TAAAA
1 TAAAA
2467312 TTACAACTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (21 bp):
TAAAAATATAAAATAAAAGTA
Found at i:2467458 original size:19 final size:21
Alignment explanation
Indices: 2467422--2467464 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
2467412 ATGGTAAAAT
*
2467422 AATTTTGAAATTAGAAATGAA
1 AATTTTGAAATTAGAAATAAA
*
2467443 AATTTT-AATTTA-AAATAAA
1 AATTTTGAAATTAGAAATAAA
2467462 AAT
1 AAT
2467465 AGTAATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 9 0.45
20 5 0.25
21 6 0.30
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (21 bp):
AATTTTGAAATTAGAAATAAA
Found at i:2469658 original size:16 final size:16
Alignment explanation
Indices: 2469637--2469668 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2469627 TTTATCTGTC
2469637 TAAATGTCATGAAAAG
1 TAAATGTCATGAAAAG
*
2469653 TAAATGTCATGGAAAG
1 TAAATGTCATGAAAAG
2469669 CTTGACTGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.06, G:0.22, T:0.25
Consensus pattern (16 bp):
TAAATGTCATGAAAAG
Found at i:2474935 original size:75 final size:74
Alignment explanation
Indices: 2474750--2474956 Score: 238
Period size: 74 Copynumber: 2.7 Consensus size: 74
2474740 CAAAGCCAAA
** * **
2474750 AATTCCAGATTGCTCATAGGGAACCGATTCCCCCCCATAGGAGGAACCGATTCCCCCCTGAATGG
1 AATTCCAGA-TGCTCGGAGGGAACCGA-TCCCCCCCATAGGAGGAACCGATT-CCCCCTAAACAG
2474815 TTTGGCTCCGAG
63 TTTGGCTCCGAG
* *
2474827 ATTTCCAGAATGCTCGGAGGGAACCGAT-TCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTT
1 AATTCCAG-ATGCTCGGAGGGAACCGATCCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTT
* * *
2474891 TTGTTCTGAG
65 TGGCTCCGAG
* *
2474901 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCCA-AGGGGGTACCGATTCCCCC
1 AATTCCAG-ATGCTCGGAGGGAACCGAT-CCCCCCCATAGGAGGAACCGATTCCCCC
2474957 CTTGTACAAC
Statistics
Matches: 112, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
74 44 0.39
75 38 0.34
76 7 0.06
77 22 0.20
78 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.21
Consensus pattern (74 bp):
AATTCCAGATGCTCGGAGGGAACCGATCCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTTT
GGCTCCGAG
Found at i:2480765 original size:21 final size:23
Alignment explanation
Indices: 2480739--2480789 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
2480729 AGGGAATTGA
2480739 TCCCCCCCTG-A-GGGAACCGAT
1 TCCCCCCCTGAAGGGGAACCGAT
**
2480760 TCCCCCTTTGAAGGGGAACCGAT
1 TCCCCCCCTGAAGGGGAACCGAT
2480783 TCCCCCC
1 TCCCCCC
2480790 ACAGGGGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 8 0.32
22 1 0.04
23 16 0.64
ACGTcount: A:0.18, C:0.43, G:0.22, T:0.18
Consensus pattern (23 bp):
TCCCCCCCTGAAGGGGAACCGAT
Found at i:2480797 original size:21 final size:21
Alignment explanation
Indices: 2480771--2480810 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2480761 CCCCCTTTGA
*
2480771 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
2480792 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
2480811 TGGGGTTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:2483533 original size:75 final size:75
Alignment explanation
Indices: 2483383--2483591 Score: 258
Period size: 75 Copynumber: 2.8 Consensus size: 75
2483373 CAAAGCCAAA
* ** * **
2483383 AATTCCAGATTGCTCATAGGGAACCGATTCCCCCCCATAGGAGGAACCGATTCCCCCCTGAATGG
1 AATTCCAGAATGCTCGGAGGGAACCGATT--CCCCCATAGGAGGAACCGATTCCCCCCTAAACAG
2483448 TTTGGCTCCGAG
64 TTTGGCTCCGAG
*
2483460 ATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTT
* *
2483525 TTGTTCCGAG
66 TGGCTCCGAG
* * * * *
2483535 AATTCCAGTATGCTCGGAGGGAATCGATCCACCCCA-AGGGGGTACCGATTCCCCCCT
1 AATTCCAGAATGCTCGGAGGGAACCGATTC-CCCCATAGGAGGAACCGATTCCCCCCT
2483592 TGTACAACGG
Statistics
Matches: 116, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
75 86 0.74
76 5 0.04
77 25 0.22
ACGTcount: A:0.24, C:0.31, G:0.23, T:0.22
Consensus pattern (75 bp):
AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTT
TGGCTCCGAG
Found at i:2486163 original size:21 final size:23
Alignment explanation
Indices: 2486137--2486187 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
2486127 AGGGAATTGA
2486137 TCCCCCCCTG-A-GGGAACCAAT
1 TCCCCCCCTGAAGGGGAACCAAT
**
2486158 TCCCCCTTTGAAGGGGAACCAAT
1 TCCCCCCCTGAAGGGGAACCAAT
2486181 TCCCCCC
1 TCCCCCC
2486188 ACAGGGGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 8 0.32
22 1 0.04
23 16 0.64
ACGTcount: A:0.22, C:0.43, G:0.18, T:0.18
Consensus pattern (23 bp):
TCCCCCCCTGAAGGGGAACCAAT
Found at i:2494136 original size:12 final size:12
Alignment explanation
Indices: 2494113--2494147 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
2494103 ATATATTCAT
2494113 TTTAAAAT-ATA
1 TTTAAAATAATA
*
2494124 TTTAATATAATA
1 TTTAAAATAATA
2494136 TTTAAAATAATA
1 TTTAAAATAATA
2494148 ATAAATTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TTTAAAATAATA
Found at i:2506895 original size:22 final size:22
Alignment explanation
Indices: 2506870--2506925 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
2506860 TATATAAATT
2506870 TATTTAAATCATAAT-TAATTAA
1 TATTTAAA-CATAATATAATTAA
*
2506892 TATTATAAACAT-TTATAATTAA
1 TATT-TAAACATAATATAATTAA
2506914 -ATTTAAACATAA
1 TATTTAAACATAA
2506926 ACTCAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
20 7 0.24
21 4 0.14
22 14 0.48
23 4 0.14
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (22 bp):
TATTTAAACATAATATAATTAA
Found at i:2508550 original size:19 final size:19
Alignment explanation
Indices: 2508523--2508567 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
2508513 ATTATATTAA
*
2508523 TCTTTTTTTCTTAATTTTC
1 TCTTCTTTTCTTAATTTTC
*
2508542 TCTTCTTTTCTTATTTTTC
1 TCTTCTTTTCTTAATTTTC
2508561 TCTTCTT
1 TCTTCTT
2508568 CTCTCACCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.73
Consensus pattern (19 bp):
TCTTCTTTTCTTAATTTTC
Found at i:2510525 original size:47 final size:47
Alignment explanation
Indices: 2510426--2510539 Score: 131
Period size: 47 Copynumber: 2.4 Consensus size: 47
2510416 ATTTCCCCTT
* * * ** *
2510426 GAAGTCGCATCCCCTAGGAAGAGTTTTATCTGGTTTTGGATTCCTGG
1 GAAGGCGCATCCCCTGGGAAGAGCTTTATCCAGTTTTGGATTCCTGA
*
2510473 GAAGGCGCATCCCCTGGGGAGAGCTTTATCCAGTTTTGGATTCCCT-A
1 GAAGGCGCATCCCCTGGGAAGAGCTTTATCCAGTTTTGGATT-CCTGA
* *
2510520 TAAGGCGCATCCCTTGGGAA
1 GAAGGCGCATCCCCTGGGAA
2510540 TCGCCTTCCC
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
47 53 0.95
48 3 0.05
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.29
Consensus pattern (47 bp):
GAAGGCGCATCCCCTGGGAAGAGCTTTATCCAGTTTTGGATTCCTGA
Found at i:2510968 original size:42 final size:40
Alignment explanation
Indices: 2510905--2510982 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
2510895 TAATAAAATC
*
2510905 ATTGAATACAAAAAATGATTAAACAAAAATAATAAAAACTTT
1 ATTGAATACAAAAAATAATT-AA-AAAAATAATAAAAACTTT
*
2510947 ATTGAATA-AAAAAATTAATTAATAAAATAATAAAAA
1 ATTGAATACAAAAAA-TAATTAAAAAAATAATAAAAA
2510983 ATGAGGAAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 13 0.39
41 8 0.24
42 12 0.36
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (40 bp):
ATTGAATACAAAAAATAATTAAAAAAATAATAAAAACTTT
Found at i:2510970 original size:16 final size:18
Alignment explanation
Indices: 2510932--2510973 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
2510922 ATTAAACAAA
*
2510932 AATAATAAAAACTTTATTG
1 AATAA-AAAAACTTAATTG
2510951 AATAAAAAAA-TTAATT-
1 AATAAAAAAACTTAATTG
2510967 AATAAAA
1 AATAAAA
2510974 TAATAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 7 0.32
17 5 0.23
18 5 0.23
19 5 0.23
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (18 bp):
AATAAAAAAACTTAATTG
Done.