Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009583.1 Hibiscus syriacus cultivar Beakdansim tig00116960_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: 1341443
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 6
Found at i:708287 original size:2 final size:2
Alignment explanation
Indices: 708280--708313 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
708270 ACATACATAC
708280 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
708314 CATTATTTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:709120 original size:22 final size:22
Alignment explanation
Indices: 709095--709136 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
709085 TTATATATAG
709095 ACATATGTCACTTATCACATAA
1 ACATATGTCACTTATCACATAA
709117 ACATATGTCACTTATCACAT
1 ACATATGTCACTTATCACAT
709137 GTCTTATATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (22 bp):
ACATATGTCACTTATCACATAA
Found at i:711605 original size:5 final size:5
Alignment explanation
Indices: 711595--711634 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
711585 TATTACTAAT
* *
711595 TTTTA TTTTA TTTTA TCTTA -TTTA TTTTA TTTTA ATTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
711635 AAATATTCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
4 3 0.10
5 27 0.90
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:711620 original size:14 final size:15
Alignment explanation
Indices: 711601--711634 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
711591 TAATTTTTAT
711601 TTTATTTTATCTT-A
1 TTTATTTTATCTTAA
*
711615 TTTATTTTATTTTAA
1 TTTATTTTATCTTAA
711630 TTTAT
1 TTTAT
711635 AAATATTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTATTTTATCTTAA
Found at i:724658 original size:21 final size:20
Alignment explanation
Indices: 724618--724659 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
724608 GATCAACACC
*
724618 TTTTCATTTGCATTTTCATT
1 TTTTCATTTGCATTTGCATT
724638 TTTTGCATTATGCA-TTGCATT
1 TTTT-CATT-TGCATTTGCATT
724659 T
1 T
724660 ATTTAAGCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 11 0.58
22 4 0.21
ACGTcount: A:0.17, C:0.14, G:0.10, T:0.60
Consensus pattern (20 bp):
TTTTCATTTGCATTTGCATT
Found at i:728462 original size:67 final size:65
Alignment explanation
Indices: 728348--728543 Score: 214
Period size: 66 Copynumber: 3.0 Consensus size: 65
728338 TCTGTCTCCC
* * * *
728348 TTGAGATAGTTTCTCTTGAAA-TAAATTTTATCTCACTTAAGATAATTTCTCTTGAAACAAAAAC
1 TTGAGATTGTTTCTCTTGAAACAAAATTTTATCTCACTCAAGACAATTTC-CTTGAAACAAAAAC
728412 A
65 A
* * * *
728413 TTTGAGATTGTTTCTCTCGAAACAAAATTTTGTCTCACTCGAGACAATTTCCATTGAAACCAAAA
1 -TTGAGATTGTTTCTCTTGAAACAAAATTTTATCTCACTCAAGACAATTTCC-TTGAAACAAAAA
728478 CA
64 CA
*** * * **
728480 AAAAGATTGTTTCTCTTGAAGCAAAATTTTATCTCGCTCAAGACAATTTCACTCAAAACAAAAA
1 TTGAGATTGTTTCTCTTGAAACAAAATTTTATCTCACTCAAGACAATTTC-CTTGAAACAAAAA
728544 AATCACTTTT
Statistics
Matches: 108, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
66 71 0.66
67 37 0.34
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (65 bp):
TTGAGATTGTTTCTCTTGAAACAAAATTTTATCTCACTCAAGACAATTTCCTTGAAACAAAAACA
Found at i:730729 original size:3 final size:3
Alignment explanation
Indices: 730721--730803 Score: 166
Period size: 3 Copynumber: 27.7 Consensus size: 3
730711 GTGTATGTCT
730721 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
730769 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
730804 TATGTACATA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 80 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:732673 original size:17 final size:17
Alignment explanation
Indices: 732625--732673 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 17
732615 ATGATATTAC
732625 ATGTATCCCAAAACTCA
1 ATGTATCCCAAAACTCA
* *
732642 ATATAGATACCAAAACTCA
1 ATGT--ATCCCAAAACTCA
732661 ATGTATCCCAAAA
1 ATGTATCCCAAAA
732674 ACTCTCAACA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 11 0.42
19 15 0.58
ACGTcount: A:0.47, C:0.24, G:0.06, T:0.22
Consensus pattern (17 bp):
ATGTATCCCAAAACTCA
Found at i:735369 original size:134 final size:133
Alignment explanation
Indices: 735129--735564 Score: 579
Period size: 134 Copynumber: 3.3 Consensus size: 133
735119 GCAAATTGAA
* * * *
735129 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACA-TTTTCAAATATGATTTTCCCTC
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAA-AGTCTCCAGATCTGATTTTCCCTC
* *
735193 AAGAAGAAACGAAACATATACCTCTCTTTCAAGATTTTATATTCCCTGAGTAACAGTGGAACAAG
65 AAGAAGAAGCGAAACATAT-CCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAG
*
735258 TCTGC
129 TCTAC
* * * * * *
735263 CTCGATTCAATCTTTCCTAAAGAACACTGGAATGAATCAATGTCTCCAGATCTAATTTCCCCTCA
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAAAGTCTCCAGATCTGATTTTCCCTCA
* * * *
735328 AGAAGAAGTGGAACATATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAATAGTAGAACAAGT
66 AGAAGAAGCGAAACATATCC-TCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
735393 CTAC
130 CTAC
*
735397 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAAAGTCCCCAGATCTGATTTTCCCTCA
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAAAGTCTCCAGATCTGATTTTCCCTCA
* * * * *
735462 AGAAAAAAGCGAAATATATCC-CTCTTTCAAAATTTGATCTTCCCTGAGTAACAATGGAACAAGT
66 AG-AAGAAGCGAAACATATCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
735526 CTAC
130 CTAC
* * * *
735530 CCCAATTCAATCTTCCCTGAAAAATAGTGGAATGA
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGA
735565 GATAATGTTT
Statistics
Matches: 262, Mismatches: 37, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
133 75 0.29
134 173 0.66
135 14 0.05
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (133 bp):
CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAAAGTCTCCAGATCTGATTTTCCCTCA
AGAAGAAGCGAAACATATCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTC
TAC
Found at i:748357 original size:8 final size:8
Alignment explanation
Indices: 748344--748368 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
748334 TCATAAATAA
748344 TTTTTATT
1 TTTTTATT
748352 TTTTTATT
1 TTTTTATT
748360 TTTTTATT
1 TTTTTATT
748368 T
1 T
748369 CAAACGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTATT
Found at i:751830 original size:4 final size:4
Alignment explanation
Indices: 751821--751845 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
751811 ATATTAGAAT
751821 TTAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA T
751846 CCTTTTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:751943 original size:90 final size:89
Alignment explanation
Indices: 751825--752020 Score: 333
Period size: 90 Copynumber: 2.2 Consensus size: 89
751815 TAGAATTTAA
751825 TTAATTAATT-AA-TTAATTAATCCTTTTATATCCAAGTTACCCTAATCATATTAGGGATTTTAT
1 TTAATTAATTGAATTTAA-TAATCCTTTTATATCCAAGTTACCCTAATCATATTAGGGATTTTAT
751888 TATTTCAAATAAATTAAATCTATAT
65 TATTTCAAATAAATTAAATCTATAT
*
751913 TTAATTAATTGGAATTTAATAATCCTTTTATATCCAAGTTCCCCTAATCATATTAGGGATTTTAT
1 TTAATTAATT-GAATTTAATAATCCTTTTATATCCAAGTTACCCTAATCATATTAGGGATTTTAT
*
751978 TATTTCAAATTAATTAAATCTATAT
65 TATTTCAAATAAATTAAATCTATAT
*
752003 TTAATTAATTGAAATTAA
1 TTAATTAATTGAATTTAA
752021 ATATTCAGGA
Statistics
Matches: 102, Mismatches: 3, Indels: 5
0.93 0.03 0.05
Matches are distributed among these distances:
88 10 0.10
89 7 0.07
90 81 0.79
91 4 0.04
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (89 bp):
TTAATTAATTGAATTTAATAATCCTTTTATATCCAAGTTACCCTAATCATATTAGGGATTTTATT
ATTTCAAATAAATTAAATCTATAT
Found at i:754852 original size:43 final size:42
Alignment explanation
Indices: 754786--754871 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 42
754776 TATATTTTAT
* *
754786 AATAATACATTTATAATCCTTTATTATATTTTAAATAATTAA
1 AATAATACATTTATAATACTTTATTATATTTTAAACAATTAA
* * *
754828 AATAATATATTTTATAATATTTTATTATATTTTTAACAATTAA
1 AATAATACA-TTTATAATACTTTATTATATTTTAAACAATTAA
754871 A
1 A
754872 GAACATATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
42 8 0.21
43 30 0.79
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (42 bp):
AATAATACATTTATAATACTTTATTATATTTTAAACAATTAA
Found at i:755493 original size:3 final size:3
Alignment explanation
Indices: 755485--755789 Score: 121
Period size: 3 Copynumber: 100.7 Consensus size: 3
755475 CCACATTAAG
* * *
755485 TAT TAT TAT TAT TAAG TAC TAT TAT TAT TAT TAT CCCAT TAT TA- TAT
1 TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT --TAT TAT TAT TAT
* * * * **
755532 TAT GCTAT TAC TAT TAT CAC TAT TAA CGT GTAT TAT T-T CCTAT TAT
1 TAT --TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT --TAT TAT
* * *
755578 TAT TAT TAT TAT TAT TAA CAT T-G TAT TAT TA- TAT TA- TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * *
755623 TAC TAT TAT TAT TAT TAT CT-T T-T TTT TTT TGT TA- AAGC CAC TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TA-T TAT TAT
* * * * **
755667 TAT TACT TAC TAT TAT TCT TAT TAT T-T GCTAC TAT TAT TAT TAA CGT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT --TAT TAT TAT TAT TAT TAT
* * *
755714 TA- TAT TAA TAT TAT TA- TAT TAT TAA TAT TAT TA- TAT TAT TAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
755759 TAT TAT TGT TAGT TAT TAT TATT TAT TAT TA
1 TAT TAT TAT TA-T TAT TAT TA-T TAT TAT TA
755790 CAACTATTAC
Statistics
Matches: 225, Mismatches: 51, Indels: 52
0.69 0.16 0.16
Matches are distributed among these distances:
2 19 0.08
3 184 0.82
4 16 0.07
5 6 0.03
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:755500 original size:16 final size:16
Alignment explanation
Indices: 755479--755514 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
755469 TTGTTACCAC
*
755479 ATTAAGTATTATTATT
1 ATTAAGTACTATTATT
755495 ATTAAGTACTATTATT
1 ATTAAGTACTATTATT
755511 ATTA
1 ATTA
755515 TTATCCCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.53
Consensus pattern (16 bp):
ATTAAGTACTATTATT
Found at i:755583 original size:16 final size:16
Alignment explanation
Indices: 755488--755584 Score: 56
Period size: 16 Copynumber: 5.8 Consensus size: 16
755478 CATTAAGTAT
** *
755488 TATTATTATTAAGTAC
1 TATTATTATTATTTCC
755504 TATTATTATTATTATCC
1 TATTATTATTATT-TCC
* *
755521 CATTATTA-TATTATGC
1 TATTATTATTATT-TCC
*
755537 TATTACTATTA--TCAC
1 TATTATTATTATTTC-C
755552 TATTAACGTGTATTATTTCC
1 TATT-A--T-TATTATTTCC
755572 TATTATTATTATT
1 TATTATTATTATT
755585 ATTATTATTA
Statistics
Matches: 63, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
14 1 0.02
15 5 0.08
16 32 0.51
17 12 0.19
19 6 0.10
20 5 0.08
21 2 0.03
ACGTcount: A:0.31, C:0.11, G:0.04, T:0.54
Consensus pattern (16 bp):
TATTATTATTATTTCC
Found at i:755690 original size:19 final size:19
Alignment explanation
Indices: 755664--755804 Score: 58
Period size: 19 Copynumber: 7.4 Consensus size: 19
755654 TTAAAGCCAC
*
755664 TATTATTACTTACTATTAT
1 TATTATTACTTACTACTAT
* * *
755683 TCTTATTATTTGCTACTAT
1 TATTATTACTTACTACTAT
* *
755702 TATTATTAACGTTA-TATTAA
1 TATTATT-AC-TTACTACTAT
* * *
755722 TATTATTATATTATTAATAT
1 TATTATTA-CTTACTACTAT
* *
755742 TATTA-TA-TTATTAATAT
1 TATTATTACTTACTACTAT
* * *
755759 TATTATT-GTTAGTTATTAT
1 TATTATTACTTA-CTACTAT
*
755778 TATTTATTA-TTACAACTAT
1 TA-TTATTACTTACTACTAT
755797 TACTTATT
1 TA-TTATT
755805 TCAAATAAGC
Statistics
Matches: 96, Mismatches: 17, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
17 15 0.16
18 4 0.04
19 46 0.48
20 29 0.30
21 2 0.02
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.57
Consensus pattern (19 bp):
TATTATTACTTACTACTAT
Found at i:755691 original size:22 final size:22
Alignment explanation
Indices: 755664--755705 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
755654 TTAAAGCCAC
755664 TATTA-TTACTTACTATTATTCT
1 TATTATTTAC-TACTATTATTCT
*
755686 TATTATTTGCTACTATTATT
1 TATTATTTACTACTATTATT
755706 ATTAACGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.26, C:0.12, G:0.02, T:0.60
Consensus pattern (22 bp):
TATTATTTACTACTATTATTCT
Found at i:755730 original size:14 final size:14
Alignment explanation
Indices: 755713--755761 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
755703 ATTATTAACG
755713 TTATATTAATATTA
1 TTATATTAATATTA
755727 TTATATTATTAATATTA
1 -T-TA-TATTAATATTA
* *
755744 TTATATTATTAATA
1 TTATATTAATATTA
755758 TTAT
1 TTAT
755762 TATTGTTAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
14 13 0.43
15 3 0.10
16 3 0.10
17 11 0.37
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTATATTAATATTA
Found at i:755736 original size:17 final size:17
Alignment explanation
Indices: 755716--755789 Score: 105
Period size: 17 Copynumber: 4.3 Consensus size: 17
755706 ATTAACGTTA
755716 TATTAATATTATTATAT
1 TATTAATATTATTATAT
755733 TATTAATATTATTATAT
1 TATTAATATTATTATAT
*
755750 TATTAATATTATTATTGT
1 TATTAATATTATTA-TAT
*
755768 TAGTTATTATTATT-TAT
1 TA-TTAATATTATTATAT
755785 TATTA
1 TATTA
755790 CAACTATTAC
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
16 3 0.06
17 35 0.67
18 4 0.08
19 10 0.19
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TATTAATATTATTATAT
Found at i:757198 original size:2 final size:2
Alignment explanation
Indices: 757191--757218 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
757181 CCACTATGAC
757191 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
757219 GTAAACGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:757502 original size:6 final size:7
Alignment explanation
Indices: 757493--757540 Score: 53
Period size: 8 Copynumber: 6.4 Consensus size: 7
757483 AAATTAAATT
757493 TATTA-A
1 TATTATA
757499 TATTATA
1 TATTATA
757506 TATATATA
1 TAT-TATA
757514 TATATATA
1 TAT-TATA
757522 TATATATA
1 TAT-TATA
757530 TATATATA
1 TAT-TATA
757538 TAT
1 TAT
757541 GTAATAATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 5 0.12
7 4 0.10
8 31 0.77
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
TATTATA
Found at i:757509 original size:2 final size:2
Alignment explanation
Indices: 757498--757540 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
757488 AAATTTATTA
757498 AT AT -T 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
757539 AT
1 AT
757541 GTAATAATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:757680 original size:29 final size:29
Alignment explanation
Indices: 757613--757702 Score: 171
Period size: 29 Copynumber: 3.1 Consensus size: 29
757603 ACTAAATCCG
757613 TCCCCGTCCCCGTTTAACATAAACGGGTTT
1 TCCCCGTCCCCGTTTAACATAAAC-GGTTT
757643 TCCCCGTCCCCGTTTAACATAAACGGTTT
1 TCCCCGTCCCCGTTTAACATAAACGGTTT
757672 TCCCCGTCCCCGTTTAACATAAACGGTTT
1 TCCCCGTCCCCGTTTAACATAAACGGTTT
757701 TC
1 TC
757703 GATTTTTCCC
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
29 36 0.60
30 24 0.40
ACGTcount: A:0.20, C:0.34, G:0.14, T:0.31
Consensus pattern (29 bp):
TCCCCGTCCCCGTTTAACATAAACGGTTT
Found at i:765517 original size:22 final size:22
Alignment explanation
Indices: 765492--765597 Score: 158
Period size: 22 Copynumber: 4.8 Consensus size: 22
765482 ACCCAAAGGG
*
765492 GGTATCGGTACTATAGTATGGT
1 GGTATCGGTACCATAGTATGGT
* *
765514 GGTATCAGTACTATAGTATGGT
1 GGTATCGGTACCATAGTATGGT
*
765536 GGTATCAGTACCATAGTATGGT
1 GGTATCGGTACCATAGTATGGT
765558 GGTATCGGTACCATAGTATGGT
1 GGTATCGGTACCATAGTATGGT
* *
765580 AGTATCGATACCATAGTA
1 GGTATCGGTACCATAGTA
765598 AGGGTATTGA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 79 1.00
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.33
Consensus pattern (22 bp):
GGTATCGGTACCATAGTATGGT
Found at i:765609 original size:20 final size:21
Alignment explanation
Indices: 765544--765609 Score: 62
Period size: 22 Copynumber: 3.1 Consensus size: 21
765534 GTGGTATCAG
* * *
765544 TACCATAGTATGGTGGTATCGG
1 TACCATAGTAAGG-AGTATCGA
*
765566 TACCATAGTATGGTAGTATCGA
1 TACCATAGTAAGG-AGTATCGA
*
765588 TACCATAGTAAGG-GTATTGA
1 TACCATAGTAAGGAGTATCGA
765608 TA
1 TA
765610 TCAGTTAACA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.20
22 32 0.80
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.32
Consensus pattern (21 bp):
TACCATAGTAAGGAGTATCGA
Found at i:765698 original size:20 final size:21
Alignment explanation
Indices: 765654--765701 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
765644 CCGGAATGGG
*
765654 GTATCGGTACCATAGTATAGAA
1 GTATCGGTACCA-AGGATAGAA
*
765676 GTATCGGTACC-AGGATAGTA
1 GTATCGGTACCAAGGATAGAA
765696 GTATCG
1 GTATCG
765702 ATACTATTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 13 0.54
22 11 0.46
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (21 bp):
GTATCGGTACCAAGGATAGAA
Found at i:769240 original size:102 final size:103
Alignment explanation
Indices: 768983--769248 Score: 344
Period size: 101 Copynumber: 2.6 Consensus size: 103
768973 CAAAATAATA
* *
768983 AGAAGAACTTCCCCCAAAGGATAAAGTTCATAATGAGAAGAACTTATTCCTTTCAAACCCATCGT
1 AGAAGAACTTGCCCCAAAGGATAAAGTTCATAATGAGAAGAACTTATTCCTTTCAAACCCATCGC
* * *
769048 AGAAGGAGGTGGATGACATTTCCAAAAGAATTCATAAT
66 AGAAGGAGGTGAACGACATTTCCAAAAGAATTCAAAAT
* * * * * * *
769086 -G-ATAACTCGCCCCAAAAGAGAAAGTTCATAATGAGAAGAATTTATTCCTTTCAAATCTATCGC
1 AGAAGAACTTGCCCCAAAGGATAAAGTTCATAATGAGAAGAACTTATTCCTTTCAAACCCATCGC
* * *
769149 AGAAGGAGGTGAACCGACATTTCTAGAAGAGTTCAAAAT
66 AGAAGGAGGTGAA-CGACATTTCCAAAAGAATTCAAAAT
769188 GAGAAGAACTTGCCCCAAAGGATAAAGTTCATAAT-A-AA-AACTTATTCCTTTCAAACCCATC
1 -AGAAGAACTTGCCCCAAAGGATAAAGTTCATAATGAGAAGAACTTATTCCTTTCAAACCCATC
769249 ATAGGTGAGT
Statistics
Matches: 137, Mismatches: 22, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
101 65 0.47
102 41 0.30
103 2 0.01
104 2 0.01
105 27 0.20
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.24
Consensus pattern (103 bp):
AGAAGAACTTGCCCCAAAGGATAAAGTTCATAATGAGAAGAACTTATTCCTTTCAAACCCATCGC
AGAAGGAGGTGAACGACATTTCCAAAAGAATTCAAAAT
Found at i:769560 original size:3 final size:3
Alignment explanation
Indices: 769552--769827 Score: 101
Period size: 3 Copynumber: 89.3 Consensus size: 3
769542 CCACATTAAG
* *
769552 TAT TAT TAT TAT TAT TAT TAT TAAG TAC TAT TAT TAT CCTAT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT --TAT TAT TAT
* * * * ** * *
769599 TAT TAT GCTAT TAC TAT TAT CAC TAT TAA CGT GTAT TAT TAT TACC TAC
1 TAT TAT --TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TA-T TAT
* * * * * * * **
769648 TAT TAT TGT TTT TAT TAT TAA CAT TA- TAT TAT TAT TGT TGT TAA TGC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
769695 CAC TAT TAT TACG TAC TAT TAT TCT TAT TAT TAGC TAT TAT TAA TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
* ** * *
769742 TAT TAT TAA CGT TA- TAT TAA TAT TAT TGAT TA- TAT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT
* * * *
769786 TAT TGT TAG TAT TAT TATT TAT TAT TAC TAC TAT TACT TAT T
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TA-T TAT T
769828 TCAAATAAGC
Statistics
Matches: 199, Mismatches: 58, Indels: 32
0.69 0.20 0.11
Matches are distributed among these distances:
2 8 0.04
3 167 0.84
4 18 0.09
5 6 0.03
ACGTcount: A:0.32, C:0.09, G:0.05, T:0.55
Consensus pattern (3 bp):
TAT
Found at i:769577 original size:25 final size:26
Alignment explanation
Indices: 769546--769599 Score: 83
Period size: 25 Copynumber: 2.1 Consensus size: 26
769536 TTGTTACCAC
*
769546 ATTAAGTATTATTATTAT-TATTATT
1 ATTAAGTACTATTATTATCTATTATT
769571 ATTAAGTACTATTATTATCCTATTATT
1 ATTAAGTACTATTATTAT-CTATTATT
769598 AT
1 AT
769600 ATTATGCTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 17 0.65
27 9 0.35
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.56
Consensus pattern (26 bp):
ATTAAGTACTATTATTATCTATTATT
Found at i:769602 original size:19 final size:18
Alignment explanation
Indices: 769552--769827 Score: 83
Period size: 19 Copynumber: 15.1 Consensus size: 18
769542 CCACATTAAG
*
769552 TATTATTATTATTATTAT
1 TATTATTACTATTATTAT
*
769570 TATTAAGTACTATTATTAT
1 TATT-ATTACTATTATTAT
769589 CCTATTATTA-TATTATGCTATT
1 --TATTATTACTATTAT--TA-T
*
769611 ACTATTATCACTATTAACGTGTAT
1 --TATTATTACTATT-A--T-TAT
*
769635 TATTATTACCTACTATTAT
1 TATTATTA-CTATTATTAT
*
769654 TGTT-TT--TATTATTA-
1 TATTATTACTATTATTAT
*
769668 -A-CATTA-TATTATTAT
1 TATTATTACTATTATTAT
* * * *** *
769683 TGTTGTTAATGCCACTAT
1 TATTATTACTATTATTAT
* *
769701 TATTACGTACTATTATTCT
1 TATTA-TTACTATTATTAT
769720 TATTATTAGCTATTATTA-
1 TATTATTA-CTATTATTAT
* ***
769738 -A-TATTATTATTAACGT
1 TATTATTACTATTATTAT
*
769754 TA-TATTAATATTATTGAT
1 TATTATTACTATTATT-AT
769772 TA-TATTACTATTATTAT
1 TATTATTACTATTATTAT
* * *
769789 TGTTAGTATTATTATTTAT
1 TATTATTACTATTA-TTAT
*
769808 TATTACTACTATTACTTAT
1 TATTATTACTATTA-TTAT
769827 T
1 T
769828 TCAAATAAGC
Statistics
Matches: 188, Mismatches: 46, Indels: 47
0.67 0.16 0.17
Matches are distributed among these distances:
13 2 0.01
14 8 0.04
15 12 0.06
16 5 0.03
17 18 0.10
18 40 0.21
19 63 0.34
20 4 0.02
21 6 0.03
22 17 0.09
23 8 0.04
24 2 0.01
25 2 0.01
26 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.05, T:0.55
Consensus pattern (18 bp):
TATTATTACTATTATTAT
Found at i:769827 original size:82 final size:81
Alignment explanation
Indices: 769659--769821 Score: 186
Period size: 82 Copynumber: 2.0 Consensus size: 81
769649 ATTATTGTTT
* *
769659 TTATTATTAACATTATATTATTATTGTTGTTAATGCCACTATTATTACGTACTATTATTCTTATT
1 TTATTATTAACATTATATTAATATTATTGTTAAT-CCACTATTATTACGTACTATTATTCTTATT
*
769724 ATTAGCTATTATTAATA
65 ATTAGCTACTATTAATA
* * * * *
769741 TTATTATTAACGTTATATTAATATTATTGATTATAT-TACTATTATTATTGTTAGTATTATTATT
1 TTATTATTAACATTATATTAATATTATTG-TTA-ATCCACTATTATTA-CG-TACTATTATT-CT
769805 TATTATTA-CTACTATTA
61 TATTATTAGCTACTATTA
769822 CTTATTTCAA
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
82 36 0.53
83 4 0.06
84 19 0.28
85 9 0.13
ACGTcount: A:0.33, C:0.07, G:0.06, T:0.55
Consensus pattern (81 bp):
TTATTATTAACATTATATTAATATTATTGTTAATCCACTATTATTACGTACTATTATTCTTATTA
TTAGCTACTATTAATA
Found at i:769847 original size:2 final size:2
Alignment explanation
Indices: 769840--769908 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
769830 AAATAAGCCC
769840 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
769882 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
769909 AAGGCCCAAA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:771668 original size:26 final size:28
Alignment explanation
Indices: 771636--771697 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
771626 TTTTACATTA
*
771636 TTTATTTTAT-TTTA-TATATACATATT
1 TTTATTTTATCATTATTATATACATATT
*
771662 TTTATTTTATCATTATTATATATATATT
1 TTTATTTTATCATTATTATATACATATT
*
771690 ATTATTTT
1 TTTATTTT
771698 TTCTATTTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 10 0.32
27 3 0.10
28 18 0.58
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (28 bp):
TTTATTTTATCATTATTATATACATATT
Found at i:771741 original size:2 final size:2
Alignment explanation
Indices: 771734--771770 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
771724 CCACATTTTA
771734 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
771771 CTGTTAATAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:771855 original size:5 final size:5
Alignment explanation
Indices: 771840--771923 Score: 52
Period size: 5 Copynumber: 17.6 Consensus size: 5
771830 TTGATTACTT
* * * * *
771840 TTTTA -TTTA TTTTA -TTTA TTTTC TTTAA TTTTA CTTTG TTTTA -TTTC
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
* * *
771887 TTTGA TGATCA TTTTA TTTTA TTTTA -TTTA -TTTA TTT
1 TTTTA T-TTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
771924 ATTATTTATT
Statistics
Matches: 59, Mismatches: 15, Indels: 10
0.70 0.18 0.12
Matches are distributed among these distances:
4 19 0.32
5 37 0.63
6 3 0.05
ACGTcount: A:0.19, C:0.05, G:0.04, T:0.73
Consensus pattern (5 bp):
TTTTA
Found at i:771857 original size:29 final size:30
Alignment explanation
Indices: 771825--771919 Score: 88
Period size: 29 Copynumber: 3.2 Consensus size: 30
771815 TTTAATTGTT
*
771825 TTTATTTGATTACT-TTTTTA-TTTATTTTA
1 TTTATTTGATTA-TAATTTTACTTTATTTTA
** *
771854 TTTATTTTCTT-TAATTTTACTTTGTTTTA
1 TTTATTTGATTATAATTTTACTTTATTTTA
* * * *
771883 TTTCTTTGATGATCATTTTATTTTATTTTA
1 TTTATTTGATTATAATTTTACTTTATTTTA
771913 TTTATTT
1 TTTATTT
771920 ATTTATTATT
Statistics
Matches: 51, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
27 1 0.02
28 5 0.10
29 24 0.47
30 21 0.41
ACGTcount: A:0.19, C:0.05, G:0.04, T:0.72
Consensus pattern (30 bp):
TTTATTTGATTATAATTTTACTTTATTTTA
Found at i:771918 original size:4 final size:4
Alignment explanation
Indices: 771899--771936 Score: 51
Period size: 4 Copynumber: 9.2 Consensus size: 4
771889 TGATGATCAT
771899 TTTA TTTTA TTTTA TTTA TTTA TTTA -TTA TTTA TTTA T
1 TTTA -TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
771937 CGTCATTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
3 3 0.09
4 20 0.62
5 9 0.28
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:772094 original size:16 final size:16
Alignment explanation
Indices: 772073--772110 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
772063 CACATCACTA
*
772073 GTAAGACGCAGATCTG
1 GTAAGACGCAGATCAG
772089 GTAAGACGCAGATCAG
1 GTAAGACGCAGATCAG
772105 GTAAGA
1 GTAAGA
772111 AATAAGGTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.37, C:0.16, G:0.32, T:0.16
Consensus pattern (16 bp):
GTAAGACGCAGATCAG
Found at i:776851 original size:14 final size:13
Alignment explanation
Indices: 776823--776873 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
776813 ACCCACCTTA
776823 TTTTTCTTTTCTC
1 TTTTTCTTTTCTC
*
776836 TTTTTCTTTTGTTC
1 TTTTTCTTTT-CTC
*
776850 TTTTTATTTCTCTC
1 TTTTTCTTT-TCTC
*
776864 TCTTT-TTTTC
1 TTTTTCTTTTC
776874 AATTTAGGGC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
12 2 0.06
13 13 0.41
14 16 0.50
15 1 0.03
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (13 bp):
TTTTTCTTTTCTC
Found at i:777395 original size:12 final size:12
Alignment explanation
Indices: 777378--777410 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
777368 TTGCCCCAGT
777378 CGAGGTTCATAC
1 CGAGGTTCATAC
*
777390 CGAGGTTCGTAC
1 CGAGGTTCATAC
777402 CGAGGTTCA
1 CGAGGTTCA
777411 ATAAACGAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.21, C:0.24, G:0.30, T:0.24
Consensus pattern (12 bp):
CGAGGTTCATAC
Found at i:786514 original size:17 final size:17
Alignment explanation
Indices: 786488--786539 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 17
786478 CTAAATAAAA
786488 AAGTATATAATTGATAC
1 AAGTATATAATTGATAC
*
786505 AAGTAAATAA---A-A-
1 AAGTATATAATTGATAC
786517 AAGTATATAATTGATAC
1 AAGTATATAATTGATAC
786534 AAGTAT
1 AAGTAT
786540 CAATCATCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 10
0.70 0.05 0.25
Matches are distributed among these distances:
12 9 0.32
13 1 0.04
14 1 0.04
15 1 0.04
16 1 0.04
17 15 0.54
ACGTcount: A:0.54, C:0.04, G:0.12, T:0.31
Consensus pattern (17 bp):
AAGTATATAATTGATAC
Found at i:786521 original size:29 final size:29
Alignment explanation
Indices: 786479--786538 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
786469 ATCAGAAAAC
786479 TAAATAAAAAAGTATATAATTGATACAAG
1 TAAATAAAAAAGTATATAATTGATACAAG
786508 TAAATAAAAAAGTATATAATTGATACAAG
1 TAAATAAAAAAGTATATAATTGATACAAG
786537 TA
1 TA
786539 TCAATCATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.58, C:0.03, G:0.10, T:0.28
Consensus pattern (29 bp):
TAAATAAAAAAGTATATAATTGATACAAG
Found at i:787701 original size:2 final size:2
Alignment explanation
Indices: 787694--787726 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
787684 CATTATGACT
787694 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
787727 GTGTGTGTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:790606 original size:12 final size:12
Alignment explanation
Indices: 790589--790639 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
790579 TTCAAAGAGG
790589 TTTTATATTTAA
1 TTTTATATTTAA
790601 TTTTATA-TTATA
1 TTTTATATTTA-A
*
790613 TTTGAT-TTTAA
1 TTTTATATTTAA
790624 TTTTA-ATATTAA
1 TTTTATAT-TTAA
790636 TTTT
1 TTTT
790640 TTTAAATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
11 9 0.27
12 24 0.73
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (12 bp):
TTTTATATTTAA
Found at i:790678 original size:26 final size:27
Alignment explanation
Indices: 790622--790700 Score: 87
Period size: 26 Copynumber: 3.0 Consensus size: 27
790612 ATTTGATTTT
*
790622 AATTTTAATATTAATTTTTTTAA-A-TA
1 AATTATAATATTAA-TTTTTTAATATTA
790648 AATTA-AATATTAATTTTTTAATATTA
1 AATTATAATATTAATTTTTTAATATTA
*
790674 TATTATAGATATTAA--TTTTAATATTA
1 AATTATA-ATATTAATTTTTTAATATTA
790700 A
1 A
790701 TTTTTTAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
24 8 0.17
25 9 0.20
26 21 0.46
27 1 0.02
28 7 0.15
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (27 bp):
AATTATAATATTAATTTTTTAATATTA
Found at i:790703 original size:40 final size:38
Alignment explanation
Indices: 790653--790737 Score: 111
Period size: 38 Copynumber: 2.2 Consensus size: 38
790643 AAATAAATTA
*
790653 AATATTAATTTTTTAATATTATATTATAGATATT-AA-TTTT
1 AATATTAATTTTTTAA-A-TAAATTA-A-ATATTAAATTTTT
790693 AATATTAATTTTTTAAATAAATTAAATATTAAATTTTT
1 AATATTAATTTTTTAAATAAATTAAATATTAAATTTTT
790731 AATATTA
1 AATATTA
790738 TATTATAGAT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
36 5 0.12
37 3 0.07
38 17 0.40
39 1 0.02
40 16 0.38
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (38 bp):
AATATTAATTTTTTAAATAAATTAAATATTAAATTTTT
Found at i:790722 original size:64 final size:65
Alignment explanation
Indices: 790593--790758 Score: 261
Period size: 64 Copynumber: 2.6 Consensus size: 65
790583 AAGAGGTTTT
* *
790593 ATATTTAA-TTTT-ATATTATATT-T-GATTTTAATTTTAATATTAATTTTTTTAAATAAATTAA
1 ATATTAAATTTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTTAAATAAATTAA
*
790654 ATATTAATTTTTTAATATTATATTATAGATATTAATTTTAATATTAA-TTTTTTAAATAAATTAA
1 ATATTAAATTTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTTAAATAAATTAA
790718 ATATTAAATTTTTAATATTATATTATAGATATTTAATTTTA
1 ATATTAAATTTTTAATATTATATTATAGATA-TTAATTTTA
790759 TATCATATAA
Statistics
Matches: 96, Mismatches: 4, Indels: 6
0.91 0.04 0.06
Matches are distributed among these distances:
61 6 0.06
62 4 0.04
63 10 0.10
64 48 0.50
65 28 0.29
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (65 bp):
ATATTAAATTTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTTAAATAAATTAA
Found at i:790791 original size:17 final size:19
Alignment explanation
Indices: 790753--790792 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
790743 TAGATATTTA
*
790753 ATTTTATATCATATAAACT
1 ATTTTATATCATATAAAAT
790772 ATTTTATAT-AT-TAAAAT
1 ATTTTATATCATATAAAAT
790789 ATTT
1 ATTT
790793 ATTTTAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 9 0.45
18 2 0.10
19 9 0.45
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTTTATATCATATAAAAT
Found at i:791304 original size:14 final size:14
Alignment explanation
Indices: 791285--791313 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
791275 ATTTTAAAAC
791285 TAAAATTATTTAAA
1 TAAAATTATTTAAA
791299 TAAAATTATTTAAA
1 TAAAATTATTTAAA
791313 T
1 T
791314 CTCAGTATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TAAAATTATTTAAA
Found at i:792070 original size:36 final size:32
Alignment explanation
Indices: 792032--792148 Score: 78
Period size: 33 Copynumber: 3.5 Consensus size: 32
792022 TTAAAGAATA
792032 AAATAAAATAATAAAAGAGAAAAGGGA-AAAATATTA
1 AAATAAAATAATAAAAGAGAAAA---ATAAAA-A-TA
* *
792068 AAAT-AAATAAAATAAAGATAAAAATAAAAATA
1 AAATAAAATAATA-AAAGAGAAAAATAAAAATA
* * *
792100 AAATAAAATAATAAGATA-AATAAAGATAAAATA
1 AAATAAAATAATAAAAGAGAA-AAATA-AAAATA
*
792133 AAACAAAATTAATAAA
1 AAATAAAA-TAATAAA
792149 GCCACACTAA
Statistics
Matches: 67, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
31 2 0.03
32 13 0.19
33 22 0.33
34 10 0.15
35 7 0.10
36 13 0.19
ACGTcount: A:0.74, C:0.01, G:0.07, T:0.19
Consensus pattern (32 bp):
AAATAAAATAATAAAAGAGAAAAATAAAAATA
Found at i:792080 original size:5 final size:5
Alignment explanation
Indices: 792066--792141 Score: 73
Period size: 5 Copynumber: 14.2 Consensus size: 5
792056 GGAAAAATAT
792066 TAAAA T-AAA TAAAA TAAAGA TAAAAA TAAAAA TAAAA TAAAA TAATAA
1 TAAAA TAAAA TAAAA TAAA-A T-AAAA T-AAAA TAAAA TAAAA TAA-AA
* *
792114 GATAAA TAAAGA TAAAA TAAAA CAAAA T
1 TA-AAA TAAA-A TAAAA TAAAA TAAAA T
792142 TAATAAAGCC
Statistics
Matches: 61, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
4 4 0.07
5 32 0.52
6 21 0.34
7 4 0.07
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:792090 original size:28 final size:30
Alignment explanation
Indices: 792058--792135 Score: 94
Period size: 28 Copynumber: 2.7 Consensus size: 30
792048 GAGAAAAGGG
792058 AAAAATATTAAAAT-AAATAAAAT-A-AAGAT
1 AAAAATA--AAAATAAAATAAAATAATAAGAT
792087 AAAAATAAAAATAAAATAAAATAATAAGAT
1 AAAAATAAAAATAAAATAAAATAATAAGAT
*
792117 --AAATAAAGATAAAATAAAA
1 AAAAATAAAAATAAAATAAAA
792136 CAAAATTAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
27 5 0.11
28 27 0.60
29 8 0.18
30 5 0.11
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.21
Consensus pattern (30 bp):
AAAAATAAAAATAAAATAAAATAATAAGAT
Found at i:792102 original size:23 final size:22
Alignment explanation
Indices: 792072--792135 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 22
792062 ATATTAAAAT
*
792072 AAATAAAATAAAGATAAAAATAA
1 AAATAAAATAAA-ATAAAAAGAA
* *
792095 AAATAAAATAAAATAATAAGAT
1 AAATAAAATAAAATAAAAAGAA
792117 AAATAAAGATAAAATAAAA
1 AAATAAA-ATAAAATAAAA
792136 CAAAATTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.39
23 22 0.61
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.19
Consensus pattern (22 bp):
AAATAAAATAAAATAAAAAGAA
Found at i:792260 original size:15 final size:15
Alignment explanation
Indices: 792240--792302 Score: 65
Period size: 15 Copynumber: 4.1 Consensus size: 15
792230 ATTTATTATT
*
792240 AATAAAATAGAAAAA
1 AATAAAAAAGAAAAA
*
792255 AATAAAAAATAAAAA
1 AATAAAAAAGAAAAA
* *
792270 AATAAAGAACAAAAGA
1 AATAAAAAAGAAAA-A
792286 AA-AACAAAAGAAAAA
1 AATAA-AAAAGAAAAA
792301 AA
1 AA
792303 AAAGTAAACA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
15 30 0.75
16 10 0.25
ACGTcount: A:0.83, C:0.03, G:0.06, T:0.08
Consensus pattern (15 bp):
AATAAAAAAGAAAAA
Found at i:792293 original size:11 final size:11
Alignment explanation
Indices: 792277--792315 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
792267 AAAAATAAAG
792277 AACAAAAGAAA
1 AACAAAAGAAA
792288 AACAAAAGAAA
1 AACAAAAGAAA
* *
792299 AAAAAAAG-TA
1 AACAAAAGAAA
792309 AACAAAA
1 AACAAAA
792316 ACATATATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 7 0.28
11 18 0.72
ACGTcount: A:0.82, C:0.08, G:0.08, T:0.03
Consensus pattern (11 bp):
AACAAAAGAAA
Found at i:793491 original size:23 final size:22
Alignment explanation
Indices: 793473--793524 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 22
793463 ATATATATAT
793473 ATATATATATTATAAATATGTA
1 ATATATATATTATAAATATGTA
*
793495 ATATATGATGTTATAAATATGTA
1 ATATAT-ATATTATAAATATGTA
793518 ATATATA
1 ATATATA
793525 CGATAAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
22 7 0.25
23 21 0.75
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (22 bp):
ATATATATATTATAAATATGTA
Found at i:793536 original size:23 final size:23
Alignment explanation
Indices: 793486--793537 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
793476 TATATATTAT
* * *
793486 AAATATGTAATATATGATGTTAT
1 AAATATGTAATATATGACGATAA
793509 AAATATGTAATATAT-ACGATAA
1 AAATATGTAATATATGACGATAA
793531 ATAATAT
1 A-AATAT
793538 CACATAAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 5 0.20
23 20 0.80
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (23 bp):
AAATATGTAATATATGACGATAA
Found at i:794340 original size:60 final size:58
Alignment explanation
Indices: 794244--794411 Score: 216
Period size: 57 Copynumber: 2.9 Consensus size: 58
794234 TCCTTTATTA
*
794244 TGAAATTGAGCTTTGAGTTGGATATCATTCGTTGTGAAGTTGAAATCCAAGTATT-GTTT
1 TGAAATTG-GCTTTGAGTTGGATATCATTCGTTGTGAAGTTGAAATCCAA-TATTAGTAT
* *
794303 TGCCAAATTGGATTTGAGTTGGATATCATTCGTTGTGAAGTTGAAATCCAATCTTGAGTAT
1 TG--AAATTGGCTTTGAGTTGGATATCATTCGTTGTGAAGTTGAAATCCAATATT-AGTAT
* * *
794364 TG--TTTGGCTTTGAGTTCGATATCCTTCGTTGTGAAGTTGAAATCCAAT
1 TGAAATTGGCTTTGAGTTGGATATCATTCGTTGTGAAGTTGAAATCCAAT
794412 TTTGTATAAT
Statistics
Matches: 98, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
57 42 0.43
59 5 0.05
60 40 0.41
61 11 0.11
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (58 bp):
TGAAATTGGCTTTGAGTTGGATATCATTCGTTGTGAAGTTGAAATCCAATATTAGTAT
Found at i:794403 original size:57 final size:57
Alignment explanation
Indices: 794253--794465 Score: 200
Period size: 57 Copynumber: 3.6 Consensus size: 57
794243 ATGAAATTGA
* * *
794253 GCTTTGAGTTGGATATCATTCGTTGTGAAGTTGAAATCCAAGTATT--GTTTTGCCAAATTG
1 GCTTTGAGTTCGATATCATTCGTTGTGAAGTTGAAATCCAA-TATTGAGTATTG----TTTG
* * *
794313 GATTTGAGTTGGATATCATTCGTTGTGAAGTTGAAATCCAATCTTGAGTATTGTTTG
1 GCTTTGAGTTCGATATCATTCGTTGTGAAGTTGAAATCCAATATTGAGTATTGTTTG
* *
794370 GCTTTGAGTTCGATATCCTTCGTTGTGAAGTTGAAATCCAATTTTGTA-TAATTTGTGTT-
1 GCTTTGAGTTCGATATCATTCGTTGTGAAGTTGAAATCCAATATTG-AGT-A-TTGT-TTG
* * * **
794429 GCTTTGAGTCCAATATCCTTCACTGTGAAGTTGAAAT
1 GCTTTGAGTTCGATATCATTCGTTGTGAAGTTGAAAT
794466 TAACTCTAGC
Statistics
Matches: 135, Mismatches: 12, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
57 46 0.34
58 2 0.01
59 40 0.30
60 42 0.31
61 5 0.04
ACGTcount: A:0.24, C:0.12, G:0.22, T:0.41
Consensus pattern (57 bp):
GCTTTGAGTTCGATATCATTCGTTGTGAAGTTGAAATCCAATATTGAGTATTGTTTG
Found at i:794457 original size:59 final size:57
Alignment explanation
Indices: 794336--794465 Score: 165
Period size: 59 Copynumber: 2.2 Consensus size: 57
794326 TATCATTCGT
* * **
794336 TGTGAAGTTGAAATCCAATCTTGAGTATTGTTTGGCTTTGAGTTCGATATCCTTCGT
1 TGTGAAGTTGAAATCCAATCTTGAGTATTGTTTGGCTTTGAGTCCAATATCCTTCAC
*
794393 TGTGAAGTTGAAATCCAATTTTGTA-TAATTTGTGTT-GCTTTGAGTCCAATATCCTTCAC
1 TGTGAAGTTGAAATCCAATCTTG-AGT-A-TTGT-TTGGCTTTGAGTCCAATATCCTTCAC
794452 TGTGAAGTTGAAAT
1 TGTGAAGTTGAAAT
794466 TAACTCTAGC
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
57 23 0.36
58 2 0.03
59 37 0.58
60 2 0.03
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.42
Consensus pattern (57 bp):
TGTGAAGTTGAAATCCAATCTTGAGTATTGTTTGGCTTTGAGTCCAATATCCTTCAC
Found at i:802444 original size:20 final size:21
Alignment explanation
Indices: 802408--802446 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
802398 ATGAATGTAA
*
802408 AAACATGGAAAATATAAAAAT
1 AAACATGGAAAAAATAAAAAT
802429 AAACAT-GAAAAAATAAAA
1 AAACATGGAAAAAATAAAA
802447 TACACAGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.72, C:0.05, G:0.08, T:0.15
Consensus pattern (21 bp):
AAACATGGAAAAAATAAAAAT
Found at i:805807 original size:10 final size:9
Alignment explanation
Indices: 805803--805937 Score: 82
Period size: 9 Copynumber: 14.6 Consensus size: 9
805793 AAAAATATAT
805803 TAAAATAAA
1 TAAAATAAA
805812 TAAAATAAA
1 TAAAATAAA
* *
805821 TATAA-CAA
1 TAAAATAAA
805829 TAAAAATAGAA
1 T-AAAATA-AA
805840 TAAAATAAA
1 TAAAATAAA
*
805849 -ATAATAAGA
1 TAAAATAA-A
805858 TAAAATAAAGA
1 TAAAAT-AA-A
805869 TAAAATAAAA
1 TAAAAT-AAA
* *
805879 CAAAATGAA
1 TAAAATAAA
805888 TAAATATAAA
1 TAAA-ATAAA
* *
805898 CAAAATTAA
1 TAAAATAAA
805907 TAAAATCACAA
1 TAAAAT-A-AA
805918 T-AAATAAA
1 TAAAATAAA
*
805926 -ACAA-AAA
1 TAAAATAAA
805933 TAAAA
1 TAAAA
805938 AAAGACAAAA
Statistics
Matches: 99, Mismatches: 16, Indels: 23
0.72 0.12 0.17
Matches are distributed among these distances:
7 3 0.03
8 16 0.16
9 34 0.34
10 27 0.27
11 19 0.19
ACGTcount: A:0.73, C:0.04, G:0.03, T:0.20
Consensus pattern (9 bp):
TAAAATAAA
Found at i:805811 original size:5 final size:5
Alignment explanation
Indices: 805758--805937 Score: 88
Period size: 5 Copynumber: 35.6 Consensus size: 5
805748 AAAACTAGCT
* * * * * *
805758 AAATA AATTA AAGATTA AAAGA AAAGA AAA-A AGAAAA AAATA TATTA
1 AAATA AAATA AA-A-TA AAATA AAATA AAATA A-AATA AAATA AAATA
*
805805 AAAT- AAATA AAATA AATATA ACAATAA AAATA GAATA AAATA AAAT-
1 AAATA AAATA AAATA AA-ATA A-AAT-A AAATA AAATA AAATA AAATA
* * * *
805851 -AATA AGATA AAATA AAGATA AAATA AAACA AAAT- GAAT- AAATA TAAACA
1 AAATA AAATA AAATA AA-ATA AAATA AAATA AAATA AAATA AAATA -AAATA
* * *
805900 AAAT- TAATA AAATCA CAAT- AAATA AAACAA AAATA AAA
1 AAATA AAATA AAAT-A AAATA AAATA AAA-TA AAATA AAA
805938 AAAGACAAAA
Statistics
Matches: 134, Mismatches: 24, Indels: 34
0.70 0.12 0.18
Matches are distributed among these distances:
3 3 0.02
4 18 0.13
5 77 0.57
6 29 0.22
7 7 0.05
ACGTcount: A:0.73, C:0.03, G:0.04, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:805842 original size:28 final size:27
Alignment explanation
Indices: 805803--805878 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 27
805793 AAAAATATAT
*
805803 TAAAATAAATAAAATAAATATAACAATA
1 TAAAATAAATAAAATAAA-ATAACAAGA
*
805831 -AAAATAGAATAAAATAAAATAATAAGA
1 TAAAATA-AATAAAATAAAATAACAAGA
805858 TAAAATAAAGATAAAATAAAA
1 TAAAAT-AA-ATAAAATAAAA
805879 CAAAATGAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
27 13 0.31
28 17 0.40
29 12 0.29
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.21
Consensus pattern (27 bp):
TAAAATAAATAAAATAAAATAACAAGA
Found at i:805860 original size:29 final size:27
Alignment explanation
Indices: 805803--805878 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 27
805793 AAAAATATAT
805803 TAAAATAAATAAAAT-AAATATAACAA
1 TAAAATAAATAAAATAAAATATAACAA
*
805829 TAAAAATAGAATAAAATAAAATAATAA-GA
1 T-AAAATA-AATAAAATAAAAT-ATAACAA
805858 TAAAATAAAGATAAAATAAAA
1 TAAAAT-AA-ATAAAATAAAA
805879 CAAAATGAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
26 1 0.02
27 6 0.14
28 14 0.33
29 18 0.42
30 4 0.09
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.21
Consensus pattern (27 bp):
TAAAATAAATAAAATAAAATATAACAA
Found at i:806067 original size:17 final size:17
Alignment explanation
Indices: 806046--806077 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
806036 TAAATAACAA
806046 AAAAAAG-AAACAAAAG
1 AAAAAAGTAAACAAAAG
806062 AAAAAAGTAAACAAAA
1 AAAAAAGTAAACAAAA
806078 ACATATATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.81, C:0.06, G:0.09, T:0.03
Consensus pattern (17 bp):
AAAAAAGTAAACAAAAG
Found at i:807147 original size:16 final size:16
Alignment explanation
Indices: 807126--807187 Score: 72
Period size: 16 Copynumber: 3.9 Consensus size: 16
807116 ATTTGGGACA
807126 GGTTCGGGTCTGGATC
1 GGTTCGGGTCTGGATC
*
807142 GGTTCGGGTC-GAGACC
1 GGTTCGGGTCTG-GATC
*
807158 GGTTCTGGTCTGGATC
1 GGTTCGGGTCTGGATC
* *
807174 GATTTGGGTCTGGA
1 GGTTCGGGTCTGGA
807188 CTAGTTTGGG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
15 1 0.03
16 36 0.95
17 1 0.03
ACGTcount: A:0.10, C:0.18, G:0.42, T:0.31
Consensus pattern (16 bp):
GGTTCGGGTCTGGATC
Found at i:808364 original size:2 final size:2
Alignment explanation
Indices: 808357--808392 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
808347 TCTTTGAGTA
808357 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
808393 GCAAACTCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:813005 original size:12 final size:12
Alignment explanation
Indices: 812985--813014 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
812975 GGTACACAAA
*
812985 TGTTCATTGTTT
1 TGTTGATTGTTT
812997 TGTTGATTGTTT
1 TGTTGATTGTTT
813009 TGTTGA
1 TGTTGA
813015 GTCTCTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.03, G:0.23, T:0.63
Consensus pattern (12 bp):
TGTTGATTGTTT
Found at i:819903 original size:5 final size:5
Alignment explanation
Indices: 819883--819916 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
819873 TTTCAACTCT
*
819883 TTTCA CTTTTA TTTCA TTTCA TTTCA TTTCA TTT
1 TTTCA -TTTCA TTTCA TTTCA TTTCA TTTCA TTT
819917 TGTTTTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.65
Consensus pattern (5 bp):
TTTCA
Found at i:819922 original size:5 final size:5
Alignment explanation
Indices: 819889--819938 Score: 55
Period size: 5 Copynumber: 10.0 Consensus size: 5
819879 CTCTTTTCAC
* * * * *
819889 TTTTA TTTCA TTTCA TTTCA TTTCA TTTTG TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
819939 CCTTTACAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.18, C:0.08, G:0.02, T:0.72
Consensus pattern (5 bp):
TTTTA
Found at i:819926 original size:15 final size:15
Alignment explanation
Indices: 819889--819938 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
819879 CTCTTTTCAC
*
819889 TTTTATTTCATTTCA
1 TTTTATTTCATTTTA
* *
819904 TTTCATTTCATTTTG
1 TTTTATTTCATTTTA
*
819919 TTTTATTTTATTTTA
1 TTTTATTTCATTTTA
819934 TTTTA
1 TTTTA
819939 CCTTTACAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.18, C:0.08, G:0.02, T:0.72
Consensus pattern (15 bp):
TTTTATTTCATTTTA
Found at i:823149 original size:16 final size:16
Alignment explanation
Indices: 823118--823151 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
823108 CGAAGCAAAA
*
823118 AATTAGAGGATCCAAG
1 AATTAGAGGAACCAAG
*
823134 AATTAGAGGAAGCAAG
1 AATTAGAGGAACCAAG
823150 AA
1 AA
823152 AGCAACAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.09, G:0.26, T:0.15
Consensus pattern (16 bp):
AATTAGAGGAACCAAG
Found at i:834698 original size:5 final size:5
Alignment explanation
Indices: 834678--834726 Score: 53
Period size: 5 Copynumber: 9.6 Consensus size: 5
834668 TTTCAACTCT
* * * *
834678 TTTCA CTTTTA TTTCA TTTCA TTTCA TTTCA TTTTA TTTTA TTTTA TTT
1 TTTCA -TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTT
834727 TACCTTTGCA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
5 36 0.90
6 4 0.10
ACGTcount: A:0.18, C:0.12, G:0.00, T:0.69
Consensus pattern (5 bp):
TTTCA
Found at i:834708 original size:15 final size:15
Alignment explanation
Indices: 834678--834726 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
834668 TTTCAACTCT
834678 TTTCACTTTTATTTCA
1 TTTCA-TTTTATTTCA
*
834694 TTTCATTTCATTTCA
1 TTTCATTTTATTTCA
* *
834709 TTTTATTTTATTTTA
1 TTTCATTTTATTTCA
834724 TTT
1 TTT
834727 TACCTTTGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
15 24 0.83
16 5 0.17
ACGTcount: A:0.18, C:0.12, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTCATTTTATTTCA
Found at i:834727 original size:5 final size:5
Alignment explanation
Indices: 834684--834728 Score: 54
Period size: 5 Copynumber: 9.0 Consensus size: 5
834674 CTCTTTTCAC
* * * *
834684 TTTTA TTTCA TTTCA TTTCA TTTCA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
834729 CCTTTGCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (5 bp):
TTTTA
Found at i:834727 original size:15 final size:15
Alignment explanation
Indices: 834684--834728 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
834674 CTCTTTTCAC
*
834684 TTTTATTTCATTTCA
1 TTTTATTTCATTTTA
*
834699 TTTCATTTCATTTTA
1 TTTTATTTCATTTTA
*
834714 TTTTATTTTATTTTA
1 TTTTATTTCATTTTA
834729 CCTTTGCAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTATTTCATTTTA
Found at i:835236 original size:13 final size:13
Alignment explanation
Indices: 835220--835244 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
835210 TTTAATATCA
835220 TATTTTATAATTT
1 TATTTTATAATTT
835233 TATTTTATAATT
1 TATTTTATAATT
835245 ATAAATAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TATTTTATAATTT
Found at i:838523 original size:8 final size:9
Alignment explanation
Indices: 838503--838555 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
838493 AAGTGGAAAT
*
838503 CATTCTATA
1 CATTCTTTA
838512 CATT-TTTA
1 CATTCTTTA
*
838520 CATTCTCTA
1 CATTCTTTA
838529 TCATT-TTTA
1 -CATTCTTTA
838538 CATTCTTT-
1 CATTCTTTA
838546 -ATTCTTTA
1 CATTCTTTA
838554 CA
1 CA
838556 ATTTCTATTC
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
7 7 0.19
8 11 0.31
9 14 0.39
10 4 0.11
ACGTcount: A:0.25, C:0.21, G:0.00, T:0.55
Consensus pattern (9 bp):
CATTCTTTA
Found at i:838535 original size:18 final size:19
Alignment explanation
Indices: 838506--838543 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
838496 TGGAAATCAT
838506 TCTATACATTTTTACATTC
1 TCTATACATTTTTACATTC
838525 TCTAT-CATTTTTACATTC
1 TCTATACATTTTTACATTC
838543 T
1 T
838544 TTATTCTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.55
Consensus pattern (19 bp):
TCTATACATTTTTACATTC
Found at i:838555 original size:16 final size:16
Alignment explanation
Indices: 838516--838573 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 16
838506 TCTATACATT
838516 TTTACATTCTCTATCATT-
1 TTTACATTCT-T-T-ATTC
838534 TTTACATTCTTTATTC
1 TTTACATTCTTTATTC
*
838550 TTTACAATT-TCTATTC
1 TTTAC-ATTCTTTATTC
838566 TTT-CATTC
1 TTTACATTC
838574 ATTCCATAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
14 3 0.08
15 4 0.11
16 15 0.42
17 4 0.11
18 10 0.28
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTACATTCTTTATTC
Found at i:841633 original size:54 final size:54
Alignment explanation
Indices: 841558--841982 Score: 548
Period size: 54 Copynumber: 7.9 Consensus size: 54
841548 AATATGGTCA
* * *
841558 TTCATAAGCTCATTATGAATTCCGTGGGTTGCACACTTAGTACCGATACAGTCG
1 TTCATAAACTTATTATGAATTCCGTGGGTTGCACACTTAGTGCCGATACAGTCG
* * * * *
841612 TTAATAAACTTATTATCAATTCTGTGGGTTGCACACTTAGTGTCGATACGGTCG
1 TTCATAAACTTATTATGAATTCCGTGGGTTGCACACTTAGTGCCGATACAGTCG
**
841666 TTCATAAACTTATTATGAATTTTGTGGGTTGCACACTTAGTGCCGATACAGTCG
1 TTCATAAACTTATTATGAATTCCGTGGGTTGCACACTTAGTGCCGATACAGTCG
* * * * *
841720 TTAATAGACTTATTATGAATTTCGTGGGTTGTACACTTAGTGTCGATACAGTCG
1 TTCATAAACTTATTATGAATTCCGTGGGTTGCACACTTAGTGCCGATACAGTCG
* * *** * *
841774 TTCATAATCTTATTATGAATTTCGTGGGTTGCACACTTAGTGTATATACGGTTG
1 TTCATAAACTTATTATGAATTCCGTGGGTTGCACACTTAGTGCCGATACAGTCG
** * *
841828 TTCATAAACTTATTATGAATTCCAAGGGTTGCACACTTAGTGACGATAC-GATTG
1 TTCATAAACTTATTATGAATTCCGTGGGTTGCACACTTAGTGCCGATACAG-TCG
* *
841882 TTCATAAACTTAATATGAATTCCGTGGGTTGCACACTTAGTGCCGATAC-GATTG
1 TTCATAAACTTATTATGAATTCCGTGGGTTGCACACTTAGTGCCGATACAG-TCG
* *
841936 TTCATAAACTTATTATGAATTCCATGGGTTGCACACTTAGTGTCGAT
1 TTCATAAACTTATTATGAATTCCGTGGGTTGCACACTTAGTGCCGAT
841983 TCGTTAAATA
Statistics
Matches: 330, Mismatches: 40, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
53 1 0.00
54 329 1.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (54 bp):
TTCATAAACTTATTATGAATTCCGTGGGTTGCACACTTAGTGCCGATACAGTCG
Found at i:847206 original size:55 final size:54
Alignment explanation
Indices: 846978--847212 Score: 299
Period size: 54 Copynumber: 4.3 Consensus size: 54
846968 ATAAGTTCTT
* * * * * * **
846978 TGGGGTGCACACGTAGTGCCGATAGGGTCATTCATAAGCTCATTATGAATTTTT
1 TGGGTTGCACACTTAGTGCCGATACGATCATTCATAAACTTATTATGAATTTCG
* *
847032 TGGGTTACACACTTAGTGCCGATACGATCATTCATAAACTTATTATGAAATTCG
1 TGGGTTGCACACTTAGTGCCGATACGATCATTCATAAACTTATTATGAATTTCG
* * * ** *
847086 TGGGTTGCACACTTAGTACCGATGCGGTTGTTCATAAACTTTTTATGAATTTCG
1 TGGGTTGCACACTTAGTGCCGATACGATCATTCATAAACTTATTATGAATTTCG
**
847140 TGGGTTGCACACTTAGTGCCGATACGATTGTTCATATAACTTATTATGAATTTCG
1 TGGGTTGCACACTTAGTGCCGATACGATCATTCATA-AACTTATTATGAATTTCG
847195 TGGGTTGCACACTTAGTG
1 TGGGTTGCACACTTAGTG
847213 TTTATTTGGT
Statistics
Matches: 158, Mismatches: 22, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
54 123 0.78
55 35 0.22
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (54 bp):
TGGGTTGCACACTTAGTGCCGATACGATCATTCATAAACTTATTATGAATTTCG
Found at i:849823 original size:23 final size:24
Alignment explanation
Indices: 849787--849831 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
849777 CACTTGAATA
849787 AAAAAAGGAAAAGAAAAAAAGATG
1 AAAAAAGGAAAAGAAAAAAAGATG
* *
849811 AAAAAAGG-GAAGAAAAGAAGA
1 AAAAAAGGAAAAGAAAAAAAGA
849832 AAAAGAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.02
Consensus pattern (24 bp):
AAAAAAGGAAAAGAAAAAAAGATG
Found at i:851335 original size:18 final size:18
Alignment explanation
Indices: 851312--851351 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
851302 AAAATGGAAA
851312 CATCAAATGCAATTAGTG
1 CATCAAATGCAATTAGTG
851330 CATCAAATGCAATTAGTG
1 CATCAAATGCAATTAGTG
851348 CATC
1 CATC
851352 GATGCTTAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.28
Consensus pattern (18 bp):
CATCAAATGCAATTAGTG
Found at i:852807 original size:23 final size:23
Alignment explanation
Indices: 852777--852868 Score: 148
Period size: 23 Copynumber: 4.0 Consensus size: 23
852767 ATTTTATATA
*
852777 GCACTTCGGTGCAATTCTACGCG
1 GCACTTCGGTGCAATTCTACGTG
*
852800 GCACTTCGGTGCAATTATACGTG
1 GCACTTCGGTGCAATTCTACGTG
852823 GCACTTCGGTGCAATTCTACGTG
1 GCACTTCGGTGCAATTCTACGTG
* *
852846 GCACTTCGGTGCATTTATACGTG
1 GCACTTCGGTGCAATTCTACGTG
852869 CTGTGGTGAT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 64 1.00
ACGTcount: A:0.18, C:0.25, G:0.26, T:0.30
Consensus pattern (23 bp):
GCACTTCGGTGCAATTCTACGTG
Found at i:852829 original size:46 final size:46
Alignment explanation
Indices: 852777--852868 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
852767 ATTTTATATA
852777 GCACTTCGGTGCAATTCTACGCGGCACTTCGGTGCAATTATACGTG
1 GCACTTCGGTGCAATTCTACGCGGCACTTCGGTGCAATTATACGTG
* *
852823 GCACTTCGGTGCAATTCTACGTGGCACTTCGGTGCATTTATACGTG
1 GCACTTCGGTGCAATTCTACGCGGCACTTCGGTGCAATTATACGTG
852869 CTGTGGTGAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.18, C:0.25, G:0.26, T:0.30
Consensus pattern (46 bp):
GCACTTCGGTGCAATTCTACGCGGCACTTCGGTGCAATTATACGTG
Found at i:860118 original size:36 final size:36
Alignment explanation
Indices: 860088--860156 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
860078 TCCTTAATGG
* * *
860088 TGTTTCCCTATAAACTAACATATTCTTCCTTAAGAC
1 TGTTTCCCTAGAAACAAACATAGTCTTCCTTAAGAC
*
860124 TGTTTCCCTAGAAACAAACTTAGTCTTCCTTAA
1 TGTTTCCCTAGAAACAAACATAGTCTTCCTTAA
860157 AAAAACCGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (36 bp):
TGTTTCCCTAGAAACAAACATAGTCTTCCTTAAGAC
Found at i:860610 original size:71 final size:72
Alignment explanation
Indices: 860533--860800 Score: 258
Period size: 71 Copynumber: 3.8 Consensus size: 72
860523 TACAATCCCA
* * *
860533 AGCCTCAATCATGCAGGACA-CCTCGTTAGTAGACGAACCCTCAGCCATGGAGGAAGTCGAACGT
1 AGCCTCAATCATGGAGGACACCCCCGTTAGTAGACGAACCCTCAGCCATGGAGGAAGTCGAACGC
860597 AACCTCG
66 AACCTCG
* * * * * * ** *
860604 AGCCTCAGTCTTGGAGGATA-TCCTGTTAGTAG-GGAAACCCTCAGAAATGGAGAAAGTCGAACG
1 AGCCTCAATCATGGAGGACACCCCCGTTAGTAGACG-AACCCTCAGCCATGGAGGAAGTCGAACG
*
860667 CAACCTCA
65 CAACCTCG
* * * * * * * * *
860675 AGCCTC-ATCCTGAAAGACA-CCCCGTTAGTTGACGAACCCTCAGTCATAGTGGAAGTCAAATGC
1 AGCCTCAATCATGGAGGACACCCCCGTTAGTAGACGAACCCTCAGCCATGGAGGAAGTCGAACGC
*
860738 AATCTCG
66 AACCTCG
* * *
860745 AGCCTCAGTCATGGAGGACACCCCCGTTAGTAGGCGAACCCTTAGCCATGGAGGAA
1 AGCCTCAATCATGGAGGACACCCCCGTTAGTAGACGAACCCTCAGCCATGGAGGAA
860801 ACTGAACACA
Statistics
Matches: 152, Mismatches: 41, Indels: 7
0.76 0.20 0.04
Matches are distributed among these distances:
70 51 0.34
71 72 0.47
72 29 0.19
ACGTcount: A:0.30, C:0.27, G:0.24, T:0.19
Consensus pattern (72 bp):
AGCCTCAATCATGGAGGACACCCCCGTTAGTAGACGAACCCTCAGCCATGGAGGAAGTCGAACGC
AACCTCG
Found at i:866537 original size:20 final size:20
Alignment explanation
Indices: 866500--866537 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
866490 CTTTAAATCA
* *
866500 TTTTTCAAAATTTTATTTTG
1 TTTTTCAAAATCTAATTTTG
866520 TTTTTCAAAATCTAATTT
1 TTTTTCAAAATCTAATTT
866538 GGCTTTCAAA
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:0.29, C:0.08, G:0.03, T:0.61
Consensus pattern (20 bp):
TTTTTCAAAATCTAATTTTG
Found at i:866538 original size:19 final size:19
Alignment explanation
Indices: 866500--866549 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
866490 CTTTAAATCA
* *
866500 TTTTTCAAAATTTTATTTTG
1 TTTTTCAAAA-TCTAATTTG
866520 TTTTTCAAAATCTAATTTG
1 TTTTTCAAAATCTAATTTG
**
866539 GCTTTCAAAAT
1 TTTTTCAAAAT
866550 AAAATCATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.30, C:0.10, G:0.06, T:0.54
Consensus pattern (19 bp):
TTTTTCAAAATCTAATTTG
Found at i:880213 original size:41 final size:41
Alignment explanation
Indices: 880168--880269 Score: 125
Period size: 42 Copynumber: 2.5 Consensus size: 41
880158 AAGGTCTTAT
*
880168 AGATGACCCGAAGGACTTATTATC-TTGCTCGAAAGACTGAC
1 AGATGACCCGAAGGACTTATCATCATT-CTCGAAAGACTGAC
* * *
880209 AGATGACCCGAAGGATTTAATCATCATTCTTGAAAGACTTAC
1 AGATGACCCGAAGGACTT-ATCATCATTCTCGAAAGACTGAC
* *
880251 TGATGGCCCGAAGGACTTA
1 AGATGACCCGAAGGACTTA
880270 CCAATTTTGG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
41 18 0.35
42 32 0.62
43 2 0.04
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (41 bp):
AGATGACCCGAAGGACTTATCATCATTCTCGAAAGACTGAC
Found at i:880882 original size:259 final size:259
Alignment explanation
Indices: 879963--881689 Score: 2572
Period size: 259 Copynumber: 6.7 Consensus size: 259
879953 TGAACTGAAA
* * * * * *
879963 GATTTAATCATCATGCTCGAAAGACTTATTGATGGCCCAAAGGACTTACCAATTTTGAAAATAGT
1 GATTTAATCATCTTTCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAAT
*
880028 TTACTAGGTAAGAAACTTTGGAAATC-ACTTTCTTACTTTTCAAAAATTTCATTTTATGAAAATA
66 TTACTAGGTAAGAAACTTTGGAAATCGA-TTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATA
** * * *
880092 CTAAATGAGAAACTTTGAAAATTGCATTCTCATTTTTCAAATTATCATAAGAAATCATCTTGCCC
130 CTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTCAAATTATCATATGAAAGCATCTTGCCC
* *
880157 AAAGGTCTTATAGATGACCCGAAGGACTTATTATCTTGCTCGAAAGACTGACAGATGACCCGAAG
195 AAAGGTCTTATAGATGACCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCAAAG
* * *
880222 GATTTAATCATCATTCTTGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAGATAAT
1 GATTTAATCATCTTTCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAAT
* * * *
880287 TTACTTGGTAAGAAACTTCGGAAATCGTTTTCTTACTTTTCAAAAATTTCATTTTCTGAAATTAC
66 TTACTAGGTAAGAAACTTTGGAAATCGATTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATAC
* **
880352 TAAATGAGAAACTTTGAAAATCACTTTAT-GGTTTTCAAATTATCATATGAAAGCATCTTGCCCA
131 TAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTCAAATTATCATATGAAAGCATCTTGCCCA
* **
880416 AAGGTCATATAGATGACCCGAAGGACTTATCATCTTGCTCGAAA-TTTGACAGATGACCCAAAG
196 AAGGTCTTATAGATGACCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCAAAG
* * *
880479 GATTTAATCATCATGT-TCGATAGACTTACTGATGGCCCAAAGGACTTACCAATTTTGGAAATAA
1 GATTTAATCATC-TTTCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAA
* * * *
880543 TTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTATTTTTCAAAAAAATTCATTTTGTGAAAAT
65 TTTACTAGGTAAGAAACTTTGGAAATCGATTTCTTACTTTTC-AAAAATTTCATTTTCTGAAAAT
*
880608 ACTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTCCAAATTATCATATGACAA-CATCTTGC
129 ACTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTCAAATTATCATATGA-AAGCATCTTGC
* * * * *
880672 CCAAAGGTCTTATAGATGGCTCGAAGAACTTATCATCTTGCTTGAAAGACTGACAGATGACCCGA
193 CCAAAGGTCTTATAGATGACCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCAA
880737 AG
258 AG
* * *
880739 GATTTAATTATCTTTCTCGAAAGACTTACTGATGTCCCGAAGGACTTATCAATTTTGGAAATAAT
1 GATTTAATCATCTTTCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAAT
* *
880804 TTACTAGGTAATAAACTTTGGAAATCGATTTCTTACTTTTCAAAAATTTCATTTTCTGAAATTAC
66 TTACTAGGTAAGAAACTTTGGAAATCGATTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATAC
* **
880869 TAAATGAGAAACTTTGAAAATCACTTTATGGTTTTTCAAATTATCATATGAAAGCATCTTGCCCA
131 TAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTCAAATTATCATATGAAAGCATCTTGCCCA
* **
880934 AAGGTCATATAGATGACCCGAAGGACTTATCATCTTGCTCGAAA-TTTGACAGATGACCCAAAG
196 AAGGTCTTATAGATGACCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCAAAG
* * *
880997 GATTTAATCATCATGT-TCGATAGACTTACTGATGGCCCAAAGGACTTACCAATTTTGGAAATAA
1 GATTTAATCATC-TTTCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAA
* * * *
881061 TTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTATTTTTCAAAAAAATTCATTTTGTGAAAAT
65 TTTACTAGGTAAGAAACTTTGGAAATCGATTTCTTACTTTTC-AAAAATTTCATTTTCTGAAAAT
*
881126 ACTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTCCAAATTATCATATGACAA-CATCTTGC
129 ACTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTCAAATTATCATATGA-AAGCATCTTGC
* * * * *
881190 CCAAAGGTCTTATAGATGGCTCGAAGAACTTATCATCTTGCTTGAAAGACTGACAGATGACCCGA
193 CCAAAGGTCTTATAGATGACCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCAA
881255 AG
258 AG
* * *
881257 GATTTAATTATCTTTCTCGAAAGACTTACTGATGTCCCGAAGGACTTATCAATTTTGGAAATAAT
1 GATTTAATCATCTTTCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAAT
* * * *
881322 TTACTAGGTAATAAACTTTGGAAATCGATTTCTTACTTTTCAAAAATTTTATTTTTTGAATATAC
66 TTACTAGGTAAGAAACTTTGGAAATCGATTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATAC
*
881387 TAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTCAAACTATCATATGAAAGCATCTTGCCCA
131 TAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTCAAATTATCATATGAAAGCATCTTGCCCA
* *
881452 AAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCAAAAGACTGACAGATGACCCAAAG
196 AAGGTCTTATAGATGACCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCAAAG
* * * * *
881516 GATTTAATCATCATGCTCGAAAGACTTACTAATGGCCCGAAGGACTTACCAATTTTAGAAATAGT
1 GATTTAATCATCTTTCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAAT
* * *
881581 TTACTAGGTAAGAAACTTTGGAAAT-TACTTTCTTACTTTTCAAAATTTTCATTTTCTGAAAAGA
66 TTACTAGGTAAGAAACTTTGGAAATCGA-TTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATA
*
881645 CTAAATGAGAAGCTTTGAAAATCACTTTCTCATTTTTCAAATTAT
130 CTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTCAAATTAT
881690 ATACAAACAA
Statistics
Matches: 1318, Mismatches: 135, Indels: 30
0.89 0.09 0.02
Matches are distributed among these distances:
257 110 0.08
258 238 0.18
259 746 0.57
260 224 0.17
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.34
Consensus pattern (259 bp):
GATTTAATCATCTTTCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAAT
TTACTAGGTAAGAAACTTTGGAAATCGATTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATAC
TAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTCAAATTATCATATGAAAGCATCTTGCCCA
AAGGTCTTATAGATGACCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCAAAG
Found at i:881077 original size:518 final size:517
Alignment explanation
Indices: 879963--881689 Score: 2893
Period size: 518 Copynumber: 3.3 Consensus size: 517
879953 TGAACTGAAA
* * *
879963 GATTTAATCATCATGCTCGAAAGACTTATTGATGGCCCAAAGGACTTACCAATTTTGAAAATAGT
1 GATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCAAAGGACTTACCAATTTTGGAAATAAT
* *
880028 TTACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTATGAAAATAC
66 TTACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAAATTCATTTTGTGAAAATAC
** * * *
880093 TAAATGAGAAACTTTGAAAATTGCATTCTCATTTTTCAAATTATCATAAGA-AATCATCTTGCCC
131 TAAATGAGAAACTTTGAAAATCACTTTCTCATTTTCCAAATTATCATATGACAA-CATCTTGCCC
* * * * *
880157 AAAGGTCTTATAGATGACCCGAAGGACTTATTATCTTGCTCGAAAGACTGACAGATGACCCGAAG
195 AAAGGTCTTATAGATGGCTCGAAGAACTTATCATCTTGCTTGAAAGACTGACAGATGACCCGAAG
* * * * * *
880222 GATTTAATCATCATTCTTGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAGATAAT
260 GATTTAATTATCTTTCTCGAAAGACTTACTGATGTCCCGAAGGACTTATCAATTTTGGAAATAAT
* * * *
880287 TTACTTGGTAAGAAACTTCGGAAATCGTTTTCTTACTTTTCAAAAATTTCATTTTCTGAAATTAC
325 TTACTAGGTAATAAACTTTGGAAATCGATTTCTTACTTTTCAAAAATTTCATTTTCTGAAATTAC
880352 TAAATGAGAAACTTTGAAAATCACTTTATGG-TTTTCAAATTATCATATGAAAGCATCTTGCCCA
390 TAAATGAGAAACTTTGAAAATCACTTTATGGTTTTTCAAATTATCATATGAAAGCATCTTGCCCA
880416 AAGGTCATATAGATGACCCGAAGGACTTATCATCTTGCTCGAAATTTGACAGATGACCCAAAG
455 AAGGTCATATAGATGACCCGAAGGACTTATCATCTTGCTCGAAATTTGACAGATGACCCAAAG
* *
880479 GATTTAATCATCATGTTCGATAGACTTACTGATGGCCCAAAGGACTTACCAATTTTGGAAATAAT
1 GATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCAAAGGACTTACCAATTTTGGAAATAAT
* *
880544 TTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTATTTTTCAAAAAAATTCATTTTGTGAAAATA
66 TTACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTC-AAAAAATTCATTTTGTGAAAATA
880609 CTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTCCAAATTATCATATGACAACATCTTGCCC
130 CTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTCCAAATTATCATATGACAACATCTTGCCC
880674 AAAGGTCTTATAGATGGCTCGAAGAACTTATCATCTTGCTTGAAAGACTGACAGATGACCCGAAG
195 AAAGGTCTTATAGATGGCTCGAAGAACTTATCATCTTGCTTGAAAGACTGACAGATGACCCGAAG
880739 GATTTAATTATCTTTCTCGAAAGACTTACTGATGTCCCGAAGGACTTATCAATTTTGGAAATAAT
260 GATTTAATTATCTTTCTCGAAAGACTTACTGATGTCCCGAAGGACTTATCAATTTTGGAAATAAT
880804 TTACTAGGTAATAAACTTTGGAAATCGATTTCTTACTTTTCAAAAATTTCATTTTCTGAAATTAC
325 TTACTAGGTAATAAACTTTGGAAATCGATTTCTTACTTTTCAAAAATTTCATTTTCTGAAATTAC
880869 TAAATGAGAAACTTTGAAAATCACTTTATGGTTTTTCAAATTATCATATGAAAGCATCTTGCCCA
390 TAAATGAGAAACTTTGAAAATCACTTTATGGTTTTTCAAATTATCATATGAAAGCATCTTGCCCA
880934 AAGGTCATATAGATGACCCGAAGGACTTATCATCTTGCTCGAAATTTGACAGATGACCCAAAG
455 AAGGTCATATAGATGACCCGAAGGACTTATCATCTTGCTCGAAATTTGACAGATGACCCAAAG
* *
880997 GATTTAATCATCATGTTCGATAGACTTACTGATGGCCCAAAGGACTTACCAATTTTGGAAATAAT
1 GATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCAAAGGACTTACCAATTTTGGAAATAAT
* *
881062 TTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTATTTTTCAAAAAAATTCATTTTGTGAAAATA
66 TTACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTC-AAAAAATTCATTTTGTGAAAATA
881127 CTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTCCAAATTATCATATGACAACATCTTGCCC
130 CTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTCCAAATTATCATATGACAACATCTTGCCC
881192 AAAGGTCTTATAGATGGCTCGAAGAACTTATCATCTTGCTTGAAAGACTGACAGATGACCCGAAG
195 AAAGGTCTTATAGATGGCTCGAAGAACTTATCATCTTGCTTGAAAGACTGACAGATGACCCGAAG
881257 GATTTAATTATCTTTCTCGAAAGACTTACTGATGTCCCGAAGGACTTATCAATTTTGGAAATAAT
260 GATTTAATTATCTTTCTCGAAAGACTTACTGATGTCCCGAAGGACTTATCAATTTTGGAAATAAT
* *
881322 TTACTAGGTAATAAACTTTGGAAATCGATTTCTTACTTTTCAAAAATTTTATTTTTTG-AATATA
325 TTACTAGGTAATAAACTTTGGAAATCGATTTCTTACTTTTCAAAAATTTCATTTTCTGAAAT-TA
* ** *
881386 CTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTCAAACTATCATATGAAAGCATCTTGCCC
389 CTAAATGAGAAACTTTGAAAATCACTTTATGGTTTTTCAAATTATCATATGAAAGCATCTTGCCC
* * * **
881451 AAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCAAAAGACTGACAGATGACCCAAAG
454 AAAGGTCATATAGATGACCCGAAGGACTTATCATCTTGCTCGAAA-TTTGACAGATGACCCAAAG
* * * *
881516 GATTTAATCATCATGCTCGAAAGACTTACTAATGGCCCGAAGGACTTACCAATTTTAGAAATAGT
1 GATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCAAAGGACTTACCAATTTTGGAAATAAT
* ** * *
881581 TTACTAGGTAAGAAACTTTGGAAATTACTTTCTTACTTTTCAAAATTTTCATTTTCTGAAAAGAC
66 TTACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAAATTCATTTTGTGAAAATAC
* *
881646 TAAATGAGAAGCTTTGAAAATCACTTTCTCATTTTTCAAATTAT
131 TAAATGAGAAACTTTGAAAATCACTTTCTCATTTTCCAAATTAT
881690 ATACAAACAA
Statistics
Matches: 1151, Mismatches: 55, Indels: 8
0.95 0.05 0.01
Matches are distributed among these distances:
516 99 0.09
517 292 0.25
518 646 0.56
519 114 0.10
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.34
Consensus pattern (517 bp):
GATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCAAAGGACTTACCAATTTTGGAAATAAT
TTACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAAATTCATTTTGTGAAAATAC
TAAATGAGAAACTTTGAAAATCACTTTCTCATTTTCCAAATTATCATATGACAACATCTTGCCCA
AAGGTCTTATAGATGGCTCGAAGAACTTATCATCTTGCTTGAAAGACTGACAGATGACCCGAAGG
ATTTAATTATCTTTCTCGAAAGACTTACTGATGTCCCGAAGGACTTATCAATTTTGGAAATAATT
TACTAGGTAATAAACTTTGGAAATCGATTTCTTACTTTTCAAAAATTTCATTTTCTGAAATTACT
AAATGAGAAACTTTGAAAATCACTTTATGGTTTTTCAAATTATCATATGAAAGCATCTTGCCCAA
AGGTCATATAGATGACCCGAAGGACTTATCATCTTGCTCGAAATTTGACAGATGACCCAAAG
Found at i:881533 original size:42 final size:41
Alignment explanation
Indices: 881462--881563 Score: 107
Period size: 42 Copynumber: 2.5 Consensus size: 41
881452 AAGGTCTTAT
* * *
881462 AGATGGCCCGAAGGACTTATCATCTTGCTCAAAAGACTGAC
1 AGATGACCCAAAGGACTTATCATCATGCTCAAAAGACTGAC
* * *
881503 AGATGACCCAAAGGATTTAATCATCATGCTCGAAAGACTTAC
1 AGATGACCCAAAGGACTT-ATCATCATGCTCAAAAGACTGAC
* *
881545 TA-ATGGCCCGAAGGACTTA
1 -AGATGACCCAAAGGACTTA
881564 CCAATTTTAG
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
41 16 0.32
42 33 0.66
43 1 0.02
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.23
Consensus pattern (41 bp):
AGATGACCCAAAGGACTTATCATCATGCTCAAAAGACTGAC
Found at i:894052 original size:29 final size:30
Alignment explanation
Indices: 894007--894063 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
893997 TCGATCCCTA
* *
894007 AATTTTTCTAAAGTTTATACTTTGGTCATT
1 AATTTTTCTAAAATTTATACTTTAGTCATT
*
894037 AATTTTTC-AAAATTTATATTTTAGTCA
1 AATTTTTCTAAAATTTATACTTTAGTCA
894064 CTAGCTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.32, C:0.09, G:0.07, T:0.53
Consensus pattern (30 bp):
AATTTTTCTAAAATTTATACTTTAGTCATT
Found at i:894221 original size:11 final size:10
Alignment explanation
Indices: 894201--894256 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 10
894191 TATTTCTTCA
894201 TCTTCTTTTTC
1 TCTT-TTTTTC
894212 TCTTTCTTTTC
1 TCTTT-TTTTC
894223 TCTTTTGTTT-
1 TCTTTT-TTTC
894233 TCTTTCATTTTTC
1 TC-TT--TTTTTC
894246 TCTTTTTTTC
1 TCTTTTTTTC
894256 T
1 T
894257 TGAATTTGAG
Statistics
Matches: 39, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
10 11 0.28
11 19 0.49
12 5 0.13
13 4 0.10
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.75
Consensus pattern (10 bp):
TCTTTTTTTC
Found at i:894254 original size:21 final size:19
Alignment explanation
Indices: 894204--894257 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 19
894194 TTCTTCATCT
*
894204 TCTTTTTCTCTTTCTTTTC
1 TCTTTTTTTCTTTCTTTTC
894223 TCTTTTGTTTTCTTTCATTTTTC
1 TC-TTT-TTTTCTTTC--TTTTC
894246 TCTTTTTTTCTT
1 TCTTTTTTTCTT
894258 GAATTTGAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.07
20 3 0.10
21 15 0.50
22 3 0.10
23 7 0.23
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (19 bp):
TCTTTTTTTCTTTCTTTTC
Found at i:894263 original size:21 final size:23
Alignment explanation
Indices: 894218--894263 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
894208 TTTCTCTTTC
**
894218 TTTTCTCTTTTGTTTTCTTTCAT
1 TTTTCTCTTTTGTTTTCTTGAAT
894241 TTTTCTC-TTT-TTTTCTTGAAT
1 TTTTCTCTTTTGTTTTCTTGAAT
894262 TT
1 TT
894264 GAGTTTATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 11 0.52
22 3 0.14
23 7 0.33
ACGTcount: A:0.07, C:0.15, G:0.04, T:0.74
Consensus pattern (23 bp):
TTTTCTCTTTTGTTTTCTTGAAT
Found at i:896357 original size:68 final size:68
Alignment explanation
Indices: 896248--896389 Score: 257
Period size: 68 Copynumber: 2.1 Consensus size: 68
896238 ATTTTTAGAT
*
896248 GAATTAGGGGACAACTGGTGCCATAATATTTCTCAAAATCAGGCACCCTAACTTTATGTGGGATG
1 GAATTAGGGGACAACTGGGGCCATAATATTTCTCAAAATCAGGCACCCTAACTTTATGTGGGATG
896313 ACC
66 ACC
*
896316 GAATTAGGGGACAACTGGGGCCATCATATTTCTCAAAATCAGGCACCCTAACTTTATGTGGGATG
1 GAATTAGGGGACAACTGGGGCCATAATATTTCTCAAAATCAGGCACCCTAACTTTATGTGGGATG
896381 ACC
66 ACC
*
896384 AAATTA
1 GAATTA
896390 TGGATCATGT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 71 1.00
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (68 bp):
GAATTAGGGGACAACTGGGGCCATAATATTTCTCAAAATCAGGCACCCTAACTTTATGTGGGATG
ACC
Found at i:896648 original size:151 final size:153
Alignment explanation
Indices: 896360--896685 Score: 593
Period size: 151 Copynumber: 2.1 Consensus size: 153
896350 AAAATCAGGC
896360 ACCCTAACTTTATGTGGGATGACCAAATTATGGATCATGTTGAGTTCTCTAGCTTCTAGTTCTTT
1 ACCCTAACTTTA-GTGGGATGACCAAATTATGGATCATGTTGAGTTCTCTAGCTTCTAGTTCTTT
896425 TTGTGAGGAATTCACACTTTTCATAGCTCCAATTGCTTCCTTCAATCGCTTGAATTTATCTTCAA
65 TTGTGAGGAATTCACACTTTTCATAGCTCCAATTGCTTCCTTCAATCGCTTGAATTTATCTTCAA
896490 ATTGCTTATGATT-ACGAGGATCT
130 ATTGCTTATGATTAACGAGGATCT
896513 ACCCTAACTTTA-TGGGATGACCAAATTATGGATCATGTTGAGTTCTCTAGCTTCTAGTTCTTTT
1 ACCCTAACTTTAGTGGGATGACCAAATTATGGATCATGTTGAGTTCTCTAGCTTCTAGTTCTTTT
896577 TGTGAGGAATTCACACTTTTCATAGCTCCAATTGCTTCCTTCAATCGCTTGAATTTATCTTCAAA
66 TGTGAGGAATTCACACTTTTCATAGCTCCAATTGCTTCCTTCAATCGCTTGAATTTATCTTCAAA
896642 TTGCTTATGATTAACGAGGATCT
131 TTGCTTATGATTAACGAGGATCT
* **
896665 TCCCTAGGTTTGAGTGGGATG
1 ACCCTAACTTT-AGTGGGATG
896686 CTCTAGGGTA
Statistics
Matches: 167, Mismatches: 3, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
151 129 0.77
152 18 0.11
153 13 0.08
154 7 0.04
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.39
Consensus pattern (153 bp):
ACCCTAACTTTAGTGGGATGACCAAATTATGGATCATGTTGAGTTCTCTAGCTTCTAGTTCTTTT
TGTGAGGAATTCACACTTTTCATAGCTCCAATTGCTTCCTTCAATCGCTTGAATTTATCTTCAAA
TTGCTTATGATTAACGAGGATCT
Found at i:898912 original size:22 final size:22
Alignment explanation
Indices: 898880--898925 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
898870 CCGAAGTAAC
* *
898880 ATTCATAATAAACATCATATAT
1 ATTCATAATAAAAATAATATAT
*
898902 ATTCATGATAAAAATAATATAT
1 ATTCATAATAAAAATAATATAT
898924 AT
1 AT
898926 AATAACAAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.37
Consensus pattern (22 bp):
ATTCATAATAAAAATAATATAT
Found at i:905125 original size:61 final size:61
Alignment explanation
Indices: 905029--905144 Score: 178
Period size: 61 Copynumber: 1.9 Consensus size: 61
905019 GTGCTAAACA
* *
905029 TACACTAAGCTTACGCTCTAGTGCTAATCCGGATATGACACATAAGGTCGTGCCCACCACT
1 TACACTAAGCTTACACTCTAGTGCTAATCCAGATATGACACATAAGGTCGTGCCCACCACT
* * * *
905090 TACACTAGGTTTACACTCTAGTGCTAATTCAGATATGACACATAAGGTTGTGCCC
1 TACACTAAGCTTACACTCTAGTGCTAATCCAGATATGACACATAAGGTCGTGCCC
905145 TCGACCTGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (61 bp):
TACACTAAGCTTACACTCTAGTGCTAATCCAGATATGACACATAAGGTCGTGCCCACCACT
Found at i:911968 original size:13 final size:13
Alignment explanation
Indices: 911950--911987 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
911940 AAGGCCTATA
911950 AAAATAATAAAAT
1 AAAATAATAAAAT
911963 AAAATAATATAAAT
1 AAAATAATA-AAAT
911977 AATAATAATAA
1 AA-AATAATAA
911988 CCCATGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 9 0.39
14 7 0.30
15 7 0.30
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
AAAATAATAAAAT
Found at i:913098 original size:16 final size:16
Alignment explanation
Indices: 913058--913100 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
913048 AATAATTAAC
913058 AAATATTTATAATAATA
1 AAATATTTA-AATAATA
* *
913075 AAAAATTTAAATTATA
1 AAATATTTAAATAATA
*
913091 ACATATTTAA
1 AAATATTTAA
913101 TTCAAAATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATATTTAAATAATA
Found at i:913830 original size:22 final size:19
Alignment explanation
Indices: 913782--913827 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
913772 TTCTCTTTCT
913782 CCTTCTTCGTCCCCCTTCA
1 CCTTCTTCGTCCCCCTTCA
*
913801 CCTTCTTCGTCCTCCTTCA
1 CCTTCTTCGTCCCCCTTCA
913820 CCTTCTTC
1 CCTTCTTC
913828 TTCTACAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.04, C:0.50, G:0.04, T:0.41
Consensus pattern (19 bp):
CCTTCTTCGTCCCCCTTCA
Found at i:915756 original size:3 final size:3
Alignment explanation
Indices: 915748--915802 Score: 56
Period size: 3 Copynumber: 16.3 Consensus size: 3
915738 CCTGCACAAT
915748 ATA ATA ATA ATA ATTA ATTA ATA ATA AGTA ATAA ATA ATAA ATA ATA
1 ATA ATA ATA ATA A-TA A-TA ATA ATA A-TA AT-A ATA AT-A ATA ATA
915795 ATA TATA A
1 ATA -ATA A
915803 AAAATGTTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
3 28 0.60
4 19 0.40
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:915771 original size:14 final size:14
Alignment explanation
Indices: 915748--915803 Score: 62
Period size: 14 Copynumber: 4.1 Consensus size: 14
915738 CCTGCACAAT
915748 ATAA-TAATAATAA
1 ATAATTAATAATAA
*
915761 TTAATTAATAATAA
1 ATAATTAATAATAA
* *
915775 GTAATAAATAATAA
1 ATAATTAATAATAA
915789 ATAA-TAATATATAA
1 ATAATTAATA-ATAA
915803 A
1 A
915804 AAATGTTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
13 7 0.19
14 29 0.81
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (14 bp):
ATAATTAATAATAA
Found at i:915772 original size:7 final size:6
Alignment explanation
Indices: 915748--915802 Score: 56
Period size: 7 Copynumber: 8.2 Consensus size: 6
915738 CCTGCACAAT
915748 ATAATA ATAATA ATTAATTA ATAATA AGTAATAA ATAATAA ATAATA ATATATA
1 ATAATA ATAATA A-TAA-TA ATAATA A-TAAT-A ATAAT-A ATAATA ATA-ATA
915802 A
1 A
915803 AAAATGTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
6 14 0.32
7 25 0.57
8 5 0.11
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (6 bp):
ATAATA
Found at i:915797 original size:17 final size:16
Alignment explanation
Indices: 915748--915802 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 16
915738 CCTGCACAAT
915748 ATAATAATAATAATTAA
1 ATAATAATAATAA-TAA
*
915765 TTAATAATAAGTAATAA
1 ATAATAATAA-TAATAA
*
915782 ATAATAAATAATAATAT
1 ATAAT-AATAATAATAA
915799 ATAA
1 ATAA
915803 AAAATGTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 25 0.76
18 8 0.24
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (16 bp):
ATAATAATAATAATAA
Found at i:916501 original size:84 final size:84
Alignment explanation
Indices: 916401--916587 Score: 248
Period size: 84 Copynumber: 2.2 Consensus size: 84
916391 TTGAATGTAA
* * * *
916401 TCGAACTCGAGGGTCTTTGATTGGCAGATAGCCCTTCTCGCCTTAAGCTATGCTGCAAAAGATGT
1 TCGAACTCAAAGGTCTTTGATTGGCAGATAACCCTTCTAGCCTTAAGCTATGCTGCAAAAGATGT
* *
916466 GCCTTTGAGCTGAGCGTAG
66 GCCTTGGAGCTAAGCGTAG
* * * * * * **
916485 TCGAACTCTAAGGTCTTTGGTTGGTAGATAACCCTTCTATCCTTGAGTTATGCTGCAACTGATGT
1 TCGAACTCAAAGGTCTTTGATTGGCAGATAACCCTTCTAGCCTTAAGCTATGCTGCAAAAGATGT
916550 GCCTTGGAGCTAAGCGTAG
66 GCCTTGGAGCTAAGCGTAG
916569 TCGAACTCAAAGGTCTTTG
1 TCGAACTCAAAGGTCTTTG
916588 TTTCAAGAGA
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
84 89 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (84 bp):
TCGAACTCAAAGGTCTTTGATTGGCAGATAACCCTTCTAGCCTTAAGCTATGCTGCAAAAGATGT
GCCTTGGAGCTAAGCGTAG
Found at i:916670 original size:35 final size:36
Alignment explanation
Indices: 916584--916688 Score: 158
Period size: 36 Copynumber: 2.9 Consensus size: 36
916574 CTCAAAGGTC
* * * *
916584 TTTGTTTCAAGAGAAACTGTCTTAAGGGAGACGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
916620 TTTGTTTCAATGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
916656 TTT-TTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
916689 TGGTGAGCAC
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
35 29 0.46
36 34 0.54
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
Found at i:917182 original size:92 final size:94
Alignment explanation
Indices: 916952--917343 Score: 598
Period size: 92 Copynumber: 4.1 Consensus size: 94
916942 AAATTGGCTC
*
916952 TGAAATCGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG-ACTTGCGTTGT
1 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
917016 CTGGAGTCC-ATATCCTTCGTT-TGAAGT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGT
917043 TGAAATTGGGAAATTG-TTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
917107 TTGGAGTCCAATATCCTTCG-T-TGAAGT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGT
917134 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
917199 CTGGAGTCCAATATCCTTCGTTGTGAAGT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGT
917228 TGAAATTGGCTCTGAAATCGGGAAATTGTTTATTGACAACCAAGCGGTCCCTTCGTCGTGAAGTT
1 TGAAA-------T----T-GGGAAATTGTTTATTGACAACC-AGCGGTCCCTTCGTCGTGAAGTT
*
917293 GAACTTGTGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
53 GAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
917335 TGAAATTGG
1 TGAAATTGG
917344 CTCTGAAATC
Statistics
Matches: 279, Mismatches: 4, Indels: 32
0.89 0.01 0.10
Matches are distributed among these distances:
90 36 0.13
91 57 0.20
92 77 0.28
93 1 0.00
94 11 0.04
95 2 0.01
96 1 0.00
100 1 0.00
101 1 0.00
105 1 0.00
106 22 0.08
107 69 0.25
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.34
Consensus pattern (94 bp):
TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
CTGGAGTCCAATATCCTTCGTTGTGAAGT
Found at i:917319 original size:107 final size:106
Alignment explanation
Indices: 917134--917373 Score: 435
Period size: 107 Copynumber: 2.2 Consensus size: 106
917124 TCGTTGAAGT
*
917134 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATCGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
917199 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
*
917240 TGAAATCGGGAAATTGTTTATTGACAACCAAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTG
1 TGAAATCGGGAAATTGTTTATTGACAACC-AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
917305 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
65 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
*
917347 TGAAATCGGGAAATGTGTTTGTTGACA
1 TGAAATCGGGAAAT-TGTTTATTGACA
917374 GACAACTTTT
Statistics
Matches: 129, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
106 28 0.22
107 90 0.70
108 11 0.09
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.34
Consensus pattern (106 bp):
TGAAATCGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
Found at i:922429 original size:3 final size:3
Alignment explanation
Indices: 922421--922482 Score: 72
Period size: 3 Copynumber: 19.3 Consensus size: 3
922411 CTGCACAAAT
922421 ATA ATA ATA ATA ATTA ATTA ATA ATA AGTA ATA ATA ATA ATAA ATAA
1 ATA ATA ATA ATA A-TA A-TA ATA ATA A-TA ATA ATA ATA AT-A AT-A
922468 ATA ATA AT- ATA ATA A
1 ATA ATA ATA ATA ATA A
922483 AATGTTTTTT
Statistics
Matches: 55, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
2 2 0.04
3 36 0.65
4 17 0.31
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:922454 original size:27 final size:26
Alignment explanation
Indices: 922421--922482 Score: 90
Period size: 27 Copynumber: 2.4 Consensus size: 26
922411 CTGCACAAAT
* *
922421 ATAATAATAATAATTAATTAATAATA
1 ATAATAATAATAATAAATAAATAATA
922447 AGTAATAATAATAATAAATAAATAATA
1 A-TAATAATAATAATAAATAAATAATA
922474 AT-ATAATAA
1 ATAATAATAA
922483 AATGTTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
25 7 0.21
26 2 0.06
27 24 0.73
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (26 bp):
ATAATAATAATAATAAATAAATAATA
Found at i:925592 original size:33 final size:34
Alignment explanation
Indices: 925546--925609 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
925536 TTTCTTTTTG
925546 CTTTTTTACAGTTTCA-AATAACAACAAAAAAAAA
1 CTTTTTTACAGTTTCAGAA-AACAACAAAAAAAAA
*
925580 CTTTTTT-TAGTTTCAGAAAACAACAAAAAA
1 CTTTTTTACAGTTTCAGAAAACAACAAAAAA
925610 GAAAAACAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 19 0.68
34 9 0.32
ACGTcount: A:0.50, C:0.14, G:0.05, T:0.31
Consensus pattern (34 bp):
CTTTTTTACAGTTTCAGAAAACAACAAAAAAAAA
Found at i:925633 original size:23 final size:21
Alignment explanation
Indices: 925596--925638 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 21
925586 TTAGTTTCAG
925596 AAAACAACAAAAAAGAAAAAC
1 AAAACAACAAAAAAGAAAAAC
925617 AAAACTAAGCAAAAAAGAAAAA
1 AAAAC-AA-CAAAAAAGAAAAA
925639 AGAGAGTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 5 0.25
22 2 0.10
23 13 0.65
ACGTcount: A:0.79, C:0.12, G:0.07, T:0.02
Consensus pattern (21 bp):
AAAACAACAAAAAAGAAAAAC
Found at i:926244 original size:108 final size:108
Alignment explanation
Indices: 926037--926260 Score: 254
Period size: 108 Copynumber: 2.1 Consensus size: 108
926027 GTCACACTAG
* * *
926037 GTTTAGCGCATTTTTGCATTTTGGTCACCTATAAGGACCAAATATGGTATTTCTTCTTTTTCGTG
1 GTTTAGCGCATTTTTGCATTCTGGTCACCTATAAGGACAAAATAT-GTATTTCTCCTTTTTCGTG
****
926102 CATGTTATGTAATTATTGAATTATTCGTTGTTTAGTCCCTCTAA
65 CATGTTATGTAATTATTGAATTATTCACCATTTAGTCCCTCTAA
* * * * *
926146 GTTTAGTGCATTTTTGCATTCTGGTCATCTGTGAGGACTAAAATCAT-TATTTC-CCTTTTTCTT
1 GTTTAGCGCATTTTTGCATTCTGGTCACCTATAAGGAC-AAAAT-ATGTATTTCTCCTTTTTCGT
* ** *
926209 GCATGTTATGTATTTATTGGGTTATTTACCATTTAGTCCCTCTAA
64 GCATGTTATGTAATTATTGAATTATTCACCATTTAGTCCCTCTAA
*
926254 ATTTAGC
1 GTTTAGC
926261 ATGTTTTTGT
Statistics
Matches: 95, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
108 50 0.53
109 39 0.41
110 4 0.04
111 2 0.02
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.46
Consensus pattern (108 bp):
GTTTAGCGCATTTTTGCATTCTGGTCACCTATAAGGACAAAATATGTATTTCTCCTTTTTCGTGC
ATGTTATGTAATTATTGAATTATTCACCATTTAGTCCCTCTAA
Done.