Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007605.1 Hibiscus syriacus cultivar Beakdansim tig00022330_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: 94394
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.31
Found at i:1651 original size:138 final size:138
Alignment explanation
Indices: 1420--1751 Score: 348
Period size: 138 Copynumber: 2.4 Consensus size: 138
1410 TTGAATAGTC
* * * * * * *
1420 AAAATGGAACCTCGAGGATAAGCGAGCACCAAATCAAAAA-TTCTCCTAGATTAAAGGACTAAGT
1 AAAATGGAACCTCGAGCAAAAGTGAG-ACCAAAT-AAAAATTTCTCCTAAATTTAAGAAATAAGT
* * * * *
1484 TTGGAATTAAACCTAAAACGGAGGCTCTAAACATTAACCTATTTAATTGTAATCAATTA-CTGAC
64 GTGAAATTAAACCTAAAACGGAGGCTCTAAACATTAACCTAATCAATTGTAACCAATTATCTGAC
1548 TCAAATAATT
129 TCAAATAATT
** *
1558 AAAATGGAACCTCGAATAAAATTGAGAACCAAATAAAAATTTCTCCTAAATTTAAGAAATAAGTG
1 AAAATGGAACCTCGAGCAAAAGTGAG-ACCAAATAAAAATTTCTCCTAAATTTAAGAAATAAGTG
* ** ** * * * *
1623 TGAAATTAAACCTAAAATGGAGTTTCTAATTATTAGCCTAATCAATTTTAACCAATTATTTGATT
65 TGAAATTAAACCTAAAACGGAGGCTCTAAACATTAACCTAATCAATTGTAACCAATTATCTGACT
* *
1688 CGAATGATT
130 CAAATAATT
*
1697 -AAATGGAACCTCGAGCAAAAGTGATGACCAAATTAAAAATTAC-CCTAAATTTAAG
1 AAAATGGAACCTCGAGCAAAAGTGA-GACCAAA-TAAAAATTTCTCCTAAATTTAAG
1752 GACTATGTAA
Statistics
Matches: 160, Mismatches: 30, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
137 5 0.03
138 134 0.84
139 21 0.13
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (138 bp):
AAAATGGAACCTCGAGCAAAAGTGAGACCAAATAAAAATTTCTCCTAAATTTAAGAAATAAGTGT
GAAATTAAACCTAAAACGGAGGCTCTAAACATTAACCTAATCAATTGTAACCAATTATCTGACTC
AAATAATT
Found at i:2582 original size:29 final size:29
Alignment explanation
Indices: 2538--2637 Score: 148
Period size: 29 Copynumber: 3.5 Consensus size: 29
2528 CCCGACACGA
*
2538 TGACATTTTGGGAAATATTTTGAAATAGG
1 TGACATTCTGGGAAATATTTTGAAATAGG
*
2567 TGACATTCTGGAAAATATTTTGAAATAGG
1 TGACATTCTGGGAAATATTTTGAAATAGG
**
2596 TGACATTCTGGGAAATATTTTGAAA-AAA
1 TGACATTCTGGGAAATATTTTGAAATAGG
*
2624 TGACATTTTGGGAA
1 TGACATTCTGGGAA
2638 TTTTCGAATT
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
28 14 0.22
29 51 0.78
ACGTcount: A:0.37, C:0.06, G:0.22, T:0.35
Consensus pattern (29 bp):
TGACATTCTGGGAAATATTTTGAAATAGG
Found at i:8714 original size:710 final size:711
Alignment explanation
Indices: 6308--8857 Score: 4086
Period size: 707 Copynumber: 3.6 Consensus size: 711
6298 AGGGTATTAC
** *
6308 TCAACAATGATTCTCAATTAGATCCAAGCCTTGATCAAGCTTGAATATATAAGACAATTTAGTCT
1 TCAACAATGATTCTCAATCGGATCCAAGCCTTGATCAAGCTTGAATGTATAAGACAATTTAGTCT
* *
6373 TCACATTAGTAAGATTATCAGAAGTGTCAAC-TTACTTACAATTG--------T-----ATATCA
66 TCACATTAGTAAGGTTATCATAAGTGTCAACTTTACTTACAATTGTATCACCATGGGCAATATCA
* *
6424 TAATTAAC-TGATCCTCGTAAT-AATGACAATTATATTTTTTCAGATGGTGTAAGATTTTCATGA
131 TAATTAACTTGATCCTCGTAATCAATGACAATTATATCTTTTCAGATAGTGTAAGATTTTCATGA
* * *
6487 AGACAAAAGACCTTGCAAGTATTCACGGTTCGAAAATCATGAAGTTAAGTGAGTTAGCAATGTTA
196 AGACAAAAGACCTTGCAAGTATTCAAGGTCCGAAAATAATGAAGTTAAGTGAGTTAGCAATGTTA
* *
6552 TTCATTTTTTAAGATGAATCCAATAGGGATAAAGTTTTAAAGAACAATATATGCTCGCTGGAAAA
261 ATCATTTTTTAAGATGAATCCAATAGGGATAAAGTTTTAAACAACAATATATGCTCGCTGGAAAA
* * *
6617 ATGGTTTGACGAGGTGGAGGTTTGGTCGGATGAGATTGTGTGTCGAAGCCACCGTACATGGTTGT
326 ATGGTTTGACAAGGTGGAGGTTTGGTCGGATGAGATTGAGTGTCGAAGCCGCCGTACATGGTTGT
* *
6682 CTTATAAAGGTATTATAGTTGGGAGAGAGAATCGGTTGGTACCAAGTTCGACATCCTGTGAAAAC
391 CTTGTAAAGGTATTATAGTTGGGAGAGAGAATCGGTTGGTACCAAGTTCGACATCCTGTGGAAAC
* * * * *
6747 ACTTAGGGGCTGTCTGCTGAGGGAAATTGAGATCAGGATAGATTCTCATTGAGGTGACATAGTCT
456 ACTTAGCGGCAGTCTGCTGAGGGAAATTGAGATCGGGCTAGATTCTCATTGAGGCGACATAGTCT
* * ** *
6812 GAGTCGAGTTTTTCCAGATCAATAAAACAGGTTAGTGCTAATGAAGATAGTCGTAGCAAGTCCCC
521 GAGTCGAGTTTTTCCAGATCTATAAAACATGTTAGTGCTAATGAAGATAGTCGTAGTTAGTCTCC
* *
6877 GTAAGTGATTGATTTCCAAAAATAGATTTTGGTTTATCAGTTCACAAGACAGAAAACCAAGTTAC
586 GTAAATGATTGATTTCCAAAAATAGATTTTGGTTTATCAGTTCACAAGACAGAAAAACAAGTTAC
*
6942 AGGTGTTGGGCCCTGTAGACTATAATCGGCAAATAACCGAAGCAAAAATTTATTCCGATGA
651 AGGGGTTGGGCCCTGTAGACTATAATCGGCAAATAACCGAAGCAAAAATTTATTCCGATGA
* *
7003 TCAACAATGATTCTCAATCGGGTCCAAGCCTTGATCAAGCTTGAATGTATAAAACAATTTAGTCT
1 TCAACAATGATTCTCAATCGGATCCAAGCCTTGATCAAGCTTGAATGTATAAGACAATTTAGTCT
* * *
7068 TCACATTAGTAACGTTATCATAAGTGTCAACTTTACTTACACTTGTATCACCATGGGCAATATAA
66 TCACATTAGTAAGGTTATCATAAGTGTCAACTTTACTTACAATTGTATCACCATGGGCAATATCA
* *
7133 TAATTAACTTGATCCTAGTAATCAATGACAATTATAT-TGTTTCAGATAGTGTAAGATTTTCTTG
131 TAATTAACTTGATCCTCGTAATCAATGACAATTATATCT-TTTCAGATAGTGTAAGATTTTCATG
* *
7197 AAGACAAAAGACCTTGCAAGTGTTCAAGGTCCGAAAATAATGAAG-T---TGAGTTAGAAATGTT
195 AAGACAAAAGACCTTGCAAGTATTCAAGGTCCGAAAATAATGAAGTTAAGTGAGTTAGCAATGTT
* * * *
7258 AATCATTTTTTATGATGCATCCAAGAGGGATAAAGTTTTAAACAACAATATATGCTTGCTGGAAA
260 AATCATTTTTTAAGATGAATCCAATAGGGATAAAGTTTTAAACAACAATATATGCTCGCTGGAAA
* *
7323 AATGGTTTGACAAGGTGGAGGTTTGGTCGGATGAGATTGAGTGTCGAAGCCGCAGTATATGGTTG
325 AATGGTTTGACAAGGTGGAGGTTTGGTCGGATGAGATTGAGTGTCGAAGCCGCCGTACATGGTTG
*
7388 TCTTGTAAAGGTATTATAGTTGGGAGAGAGAATCGGTTGGTACCAAGTTCGATATCCTGTGGAAA
390 TCTTGTAAAGGTATTATAGTTGGGAGAGAGAATCGGTTGGTACCAAGTTCGACATCCTGTGGAAA
* **
7453 CACTTAGCGACACACTGCTGAGGGAAATTGAGATCGGGCTAGATTCTCATTGAGGCGACATAGTC
455 CACTTAGCGGCAGTCTGCTGAGGGAAATTGAGATCGGGCTAGATTCTCATTGAGGCGACATAGTC
* * * *
7518 TGAGTCGAGTTTTTCCAGATCTATAAAACATGTTATTACTAATGATGATAATCGTAGTTAGTCTC
520 TGAGTCGAGTTTTTCCAGATCTATAAAACATGTTAGTGCTAATGAAGATAGTCGTAGTTAGTCTC
* *
7583 CGTAAATGATTGATTTCTAAAAATAGATTTTGGTTTATCAGTTCACAAGATAGAAAAACAAGTTA
585 CGTAAATGATTGATTTCCAAAAATAGATTTTGGTTTATCAGTTCACAAGACAGAAAAACAAGTTA
* *
7648 CAAGGGTTGGGCCCTGTAGACTATAATCGGCAAATAACCGAAGCAAAAATTTATTTCGATGA
650 CAGGGGTTGGGCCCTGTAGACTATAATCGGCAAATAACCGAAGCAAAAATTTATTCCGATGA
* * * *
7710 TCACCAATGATTCTCAATCGGGTCCAAGCCTTGACCAAGCTTGAATGTACAAGACAATTTAGTCT
1 TCAACAATGATTCTCAATCGGATCCAAGCCTTGATCAAGCTTGAATGTATAAGACAATTTAGTCT
*
7775 TCACATTAGTAAGGTTATCATAAGTGTCAACTTTACTTACAATTGTATCAACATGGGCAATATCA
66 TCACATTAGTAAGGTTATCATAAGTGTCAACTTTACTTACAATTGTATCACCATGGGCAATATCA
* *
7840 TAATTAACTTGATCCTCCTTATCAATGACAATTATATCTTTTCAGATAGTGTAAGATTTTCATGA
131 TAATTAACTTGATCCTCGTAATCAATGACAATTATATCTTTTCAGATAGTGTAAGATTTTCATGA
7905 AGACAAAAGACCTTGCAAGTATTCAAGGTCCGAAAATAATGAAGTTAAGTGAGTTAGCAATGTTA
196 AGACAAAAGACCTTGCAAGTATTCAAGGTCCGAAAATAATGAAGTTAAGTGAGTTAGCAATGTTA
* *
7970 ATCA-TATTTAATGATGAATCCAATAGGGATAAAGTTTTAAACAACAATATATGCTCGTTGGAAA
261 ATCATTTTTTAA-GATGAATCCAATAGGGATAAAGTTTTAAACAACAATATATGCTCGCTGGAAA
*
8034 AATGGTTTGACAAGGTGGAGGTTTGTTCGGATGAGATTGAGTGTCGAAGCCGCCGTACATGGTTG
325 AATGGTTTGACAAGGTGGAGGTTTGGTCGGATGAGATTGAGTGTCGAAGCCGCCGTACATGGTTG
8099 TCTTGTAAAGGTATTATAGTTGGGAGAGAGAATCGGTTGGTACCAAGTTCGACATCCTGTGGAAA
390 TCTTGTAAAGGTATTATAGTTGGGAGAGAGAATCGGTTGGTACCAAGTTCGACATCCTGTGGAAA
*
8164 CACTTAGCGGCAGTCTACTGAGGGAAATTGAGATCGGGCTAGATTCTCATTGAGGCGACATAGTC
455 CACTTAGCGGCAGTCTGCTGAGGGAAATTGAGATCGGGCTAGATTCTCATTGAGGCGACATAGTC
* *
8229 TGAGTCGAGTTTTTCCAAATCTATAAAACATGTTAGTGCTAATGACGATAGTCGTAGTTAGTCTC
520 TGAGTCGAGTTTTTCCAGATCTATAAAACATGTTAGTGCTAATGAAGATAGTCGTAGTTAGTCTC
8294 CGTAAATGATTGATTTCCAAAAATAGATTTTGGTTTATCAGTTCACAAGACA-AAAAACAAGTTA
585 CGTAAATGATTGATTTCCAAAAATAGATTTTGGTTTATCAGTTCACAAGACAGAAAAACAAGTTA
* * *
8358 CAGGGGTTGGGCCATGTATACTATAATCGGAAAATAACCGAAGCAAAAATTTATTCCGATGA
650 CAGGGGTTGGGCCCTGTAGACTATAATCGGCAAATAACCGAAGCAAAAATTTATTCCGATGA
*
8420 TCAACAATGATTCTCAATCGGATCCAAGCCTTGATCAAGCTGGAATGT-TCAAGACAATTTAGTC
1 TCAACAATGATTCTCAATCGGATCCAAGCCTTGATCAAGCTTGAATGTAT-AAGACAATTTAGTC
* *
8484 TTCACATTAGCAAGGTTATCATAAGTGTTAACTTTACTTACAATTGTATCACCATGGGCAATATC
65 TTCACATTAGTAAGGTTATCATAAGTGTCAACTTTACTTACAATTGTATCACCATGGGCAATATC
* *
8549 ATAATTAACTTGATCCTCGTAGTCAATGACAATTATATCTTTTCAGATAGTGTAATATTTTCATG
130 ATAATTAACTTGATCCTCGTAATCAATGACAATTATATCTTTTCAGATAGTGTAAGATTTTCATG
* *
8614 AAGACAAAAGACCTTTCAAGTATTCAAGGTCCAAAAATAATGAAGTTAAGTGAGTTAGCAATGTT
195 AAGACAAAAGACCTTGCAAGTATTCAAGGTCCGAAAATAATGAAGTTAAGTGAGTTAGCAATGTT
* * * ** *
8679 AATCATTTTTGAAGATGGATCCAATAGGGATAAAGTTTTAAAGAACAATATACACTCGTTGGAAA
260 AATCATTTTTTAAGATGAATCCAATAGGGATAAAGTTTTAAACAACAATATATGCTCGCTGGAAA
*
8744 AATGGTTTGACAAGGTGGAGGTTTGGTCGGATGAGATTGAGTGTCGAAGCCGCCGTACATTGTTG
325 AATGGTTTGACAAGGTGGAGGTTTGGTCGGATGAGATTGAGTGTCGAAGCCGCCGTACATGGTTG
* * * *
8809 TCTTGTAAAGGTATTACAGTTGAGAGAGATAATCAGTTGGTACCAAGTT
390 TCTTGTAAAGGTATTATAGTTGGGAGAGAGAATCGGTTGGTACCAAGTT
8858 GGTGAAGAGA
Statistics
Matches: 1708, Mismatches: 122, Indels: 35
0.92 0.07 0.02
Matches are distributed among these distances:
695 88 0.05
696 12 0.01
704 1 0.00
707 652 0.38
708 2 0.00
709 13 0.01
710 493 0.29
711 447 0.26
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (711 bp):
TCAACAATGATTCTCAATCGGATCCAAGCCTTGATCAAGCTTGAATGTATAAGACAATTTAGTCT
TCACATTAGTAAGGTTATCATAAGTGTCAACTTTACTTACAATTGTATCACCATGGGCAATATCA
TAATTAACTTGATCCTCGTAATCAATGACAATTATATCTTTTCAGATAGTGTAAGATTTTCATGA
AGACAAAAGACCTTGCAAGTATTCAAGGTCCGAAAATAATGAAGTTAAGTGAGTTAGCAATGTTA
ATCATTTTTTAAGATGAATCCAATAGGGATAAAGTTTTAAACAACAATATATGCTCGCTGGAAAA
ATGGTTTGACAAGGTGGAGGTTTGGTCGGATGAGATTGAGTGTCGAAGCCGCCGTACATGGTTGT
CTTGTAAAGGTATTATAGTTGGGAGAGAGAATCGGTTGGTACCAAGTTCGACATCCTGTGGAAAC
ACTTAGCGGCAGTCTGCTGAGGGAAATTGAGATCGGGCTAGATTCTCATTGAGGCGACATAGTCT
GAGTCGAGTTTTTCCAGATCTATAAAACATGTTAGTGCTAATGAAGATAGTCGTAGTTAGTCTCC
GTAAATGATTGATTTCCAAAAATAGATTTTGGTTTATCAGTTCACAAGACAGAAAAACAAGTTAC
AGGGGTTGGGCCCTGTAGACTATAATCGGCAAATAACCGAAGCAAAAATTTATTCCGATGA
Found at i:11575 original size:36 final size:36
Alignment explanation
Indices: 11528--11600 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
11518 AGTTCTGGAA
11528 TTAAGTGATAAAAGAATCAACCATGGATATGTAGAT
1 TTAAGTGATAAAAGAATCAACCATGGATATGTAGAT
*
11564 TTAAGTGATAAAAGAATCAGCCATGGATATGTAGAT
1 TTAAGTGATAAAAGAATCAACCATGGATATGTAGAT
11600 T
1 T
11601 ATAATTTATC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (36 bp):
TTAAGTGATAAAAGAATCAACCATGGATATGTAGAT
Found at i:13401 original size:12 final size:12
Alignment explanation
Indices: 13381--13450 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
13371 GATACATGAC
*
13381 CTGAATTCTGTT
1 CTGATTTCTGTT
*
13393 CTGATTTCTGAT
1 CTGATTTCTGTT
*
13405 ATGGA-TTCTGTT
1 CT-GATTTCTGTT
* *
13417 TTGATATCTGTT
1 CTGATTTCTGTT
*
13429 CTGAATTCTGTT
1 CTGATTTCTGTT
*
13441 TTGATTTCTG
1 CTGATTTCTG
13451 ATATCTCCGT
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
11 2 0.04
12 41 0.91
13 2 0.04
ACGTcount: A:0.16, C:0.13, G:0.19, T:0.53
Consensus pattern (12 bp):
CTGATTTCTGTT
Found at i:13412 original size:24 final size:24
Alignment explanation
Indices: 13382--13454 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
13372 ATACATGACC
*
13382 TGAATTCTGTTCTGATTTCTGATA
1 TGAATTCTGTTTTGATTTCTGATA
* * * *
13406 TGGATTCTGTTTTGATATCTGTTC
1 TGAATTCTGTTTTGATTTCTGATA
13430 TGAATTCTGTTTTGATTTCTGATA
1 TGAATTCTGTTTTGATTTCTGATA
13454 T
1 T
13455 CTCCGTTTAC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.18, C:0.11, G:0.18, T:0.53
Consensus pattern (24 bp):
TGAATTCTGTTTTGATTTCTGATA
Found at i:13415 original size:48 final size:48
Alignment explanation
Indices: 13344--13454 Score: 136
Period size: 48 Copynumber: 2.3 Consensus size: 48
13334 AAATATTTTA
13344 TCTGATTTCTGACT-TAAATTCTGTTATGATA-CATGACCTGAATTCTGT
1 TCTGATTTCTGA-TATAAATTCTGTTATGATATC-TGACCTGAATTCTGT
** * **
13392 TCTGATTTCTGATATGGATTCTGTTTTGATATCTGTTCTGAATTCTGT
1 TCTGATTTCTGATATAAATTCTGTTATGATATCTGACCTGAATTCTGT
*
13440 TTTGATTTCTGATAT
1 TCTGATTTCTGATAT
13455 CTCCGTTTAC
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 1 0.02
48 53 0.96
49 1 0.02
ACGTcount: A:0.21, C:0.14, G:0.16, T:0.50
Consensus pattern (48 bp):
TCTGATTTCTGATATAAATTCTGTTATGATATCTGACCTGAATTCTGT
Found at i:13430 original size:17 final size:19
Alignment explanation
Indices: 13387--13438 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 19
13377 TGACCTGAAT
13387 TCTGTTCTGATTTCTGATA
1 TCTGTTCTGATTTCTGATA
*
13406 T-GGATTCTG-TTT-TGATA
1 TCTG-TTCTGATTTCTGATA
*
13423 TCTGTTCTGAATTCTG
1 TCTGTTCTGATTTCTG
13439 TTTTGATTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 8
0.70 0.08 0.22
Matches are distributed among these distances:
17 11 0.42
18 7 0.27
19 8 0.31
ACGTcount: A:0.15, C:0.13, G:0.19, T:0.52
Consensus pattern (19 bp):
TCTGTTCTGATTTCTGATA
Found at i:13617 original size:2 final size:2
Alignment explanation
Indices: 13610--13664 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
13600 AGGATGGGGG
13610 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13652 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
13665 TTTAAAAGAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15056 original size:139 final size:139
Alignment explanation
Indices: 14906--15293 Score: 351
Period size: 138 Copynumber: 2.8 Consensus size: 139
14896 CAAAAAGTGT
* * * *
14906 AGGCTCT-AATATTAATCCTAATCATTTTTAGTGAATTATTGAATTGAATAGTCAAAATGGAACC
1 AGGCTCTAAATATTAATCCTAATCAATTTTAATCAATTATTGAATTGAATAGTTAAAATGGAACC
* * * * * * *
14970 TCGAGGATAAGCGAGCACCAAATCAAAAA-TTCTCCTAGATTAAAGGACTAAGTTTGGAATTAAA
66 TCGAGGAAAAGCGAGAACCAAAT-AAAAATTTCTCCTAAATTAAAGAAATAAGTGTGAAATTAAA
15034 CCTAAAACGG
130 CCTAAAACGG
* * * * * ** *
15044 AGGCTCTAAATATTAA-CCTATTTAATTGTAATCAATTACTGACTCAAATAATTAAAATGGAACC
1 AGGCTCTAAATATTAATCCTAATCAATTTTAATCAATTATTGAATTGAATAGTTAAAATGGAACC
** ** *
15108 TCGAATAAAATTGAGAACCAAATAAAAATTTCTCCTAAATTTAAGAAATAAGTGTGAAATTAAAC
66 TCGAGGAAAAGCGAGAACCAAATAAAAATTTCTCCTAAATTAAAGAAATAAGTGTGAAATTAAAC
*
15173 CTAAAATGG
131 CTAAAACGG
** * * *
15182 AGTTTCTAATTATTAGT-CTAATCAATTTTAACCAATTATTTG-ATTCGAAT-GATTAAAATGGA
1 AGGCTCTAAATATTAATCCTAATCAATTTTAATCAATTA-TTGAATT-GAATAG-TTAAAATGGA
* * * *
15244 ACCTCGAGCAAAAGTGATG-ATCAAATTAAAAATTAC-CCTAAATTTAAAGA
63 ACCTCGAGGAAAAGCGA-GAACCAAA-TAAAAATTTCTCCTAAA-TTAAAGA
15294 CTATGTAACA
Statistics
Matches: 197, Mismatches: 44, Indels: 16
0.77 0.17 0.06
Matches are distributed among these distances:
137 5 0.03
138 128 0.65
139 48 0.24
140 16 0.08
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.30
Consensus pattern (139 bp):
AGGCTCTAAATATTAATCCTAATCAATTTTAATCAATTATTGAATTGAATAGTTAAAATGGAACC
TCGAGGAAAAGCGAGAACCAAATAAAAATTTCTCCTAAATTAAAGAAATAAGTGTGAAATTAAAC
CTAAAACGG
Found at i:16081 original size:17 final size:17
Alignment explanation
Indices: 16059--16115 Score: 69
Period size: 17 Copynumber: 3.1 Consensus size: 17
16049 CCGGTCTAAC
16059 CCGACCCGACCCGATGA
1 CCGACCCGACCCGATGA
16076 CCGACCCGACCCGACCCGTTGA
1 CCGACCCGACCCGA-----TGA
16098 CCGACCCGACCCGATGA
1 CCGACCCGACCCGATGA
16115 C
1 C
16116 ATTTTGGGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
17 18 0.51
22 17 0.49
ACGTcount: A:0.21, C:0.49, G:0.23, T:0.07
Consensus pattern (17 bp):
CCGACCCGACCCGATGA
Found at i:16082 original size:22 final size:22
Alignment explanation
Indices: 16057--16111 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
16047 GACCGGTCTA
16057 ACCCGACCCGACCCGATGACCG
1 ACCCGACCCGACCCGATGACCG
*
16079 ACCCGACCCGACCCGTTGACCG
1 ACCCGACCCGACCCGATGACCG
16101 ACCCGACCCGA
1 ACCCGACCCGA
16112 TGACATTTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.22, C:0.51, G:0.22, T:0.05
Consensus pattern (22 bp):
ACCCGACCCGACCCGATGACCG
Found at i:16232 original size:58 final size:58
Alignment explanation
Indices: 16111--16241 Score: 210
Period size: 58 Copynumber: 2.3 Consensus size: 58
16101 ACCCGACCCG
* *
16111 ATGACATTTTGGGAAATATTTTGAAATAGGTGACATTCTGGGAAATATTTTGAAATAG
1 ATGACATTTTGGGAAATATTTTGAAATAGGTGACATTCTAGGAAATATTTTGAAATAA
* *
16169 GTGACATTCTGGGAAATATTTTGAAATAGGTGACATTCTAGGAAATATTTTGGAAA-AA
1 ATGACATTTTGGGAAATATTTTGAAATAGGTGACATTCTAGGAAATATTTT-GAAATAA
16227 ATGACATTTTGGGAA
1 ATGACATTTTGGGAA
16242 TTTTCGAATT
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
58 62 0.94
59 4 0.06
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.34
Consensus pattern (58 bp):
ATGACATTTTGGGAAATATTTTGAAATAGGTGACATTCTAGGAAATATTTTGAAATAA
Found at i:16241 original size:29 final size:29
Alignment explanation
Indices: 16112--16220 Score: 200
Period size: 29 Copynumber: 3.8 Consensus size: 29
16102 CCCGACCCGA
*
16112 TGACATTTTGGGAAATATTTTGAAATAGG
1 TGACATTCTGGGAAATATTTTGAAATAGG
16141 TGACATTCTGGGAAATATTTTGAAATAGG
1 TGACATTCTGGGAAATATTTTGAAATAGG
16170 TGACATTCTGGGAAATATTTTGAAATAGG
1 TGACATTCTGGGAAATATTTTGAAATAGG
*
16199 TGACATTCTAGGAAATATTTTG
1 TGACATTCTGGGAAATATTTTG
16221 GAAAAAATGA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
29 78 1.00
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.37
Consensus pattern (29 bp):
TGACATTCTGGGAAATATTTTGAAATAGG
Found at i:17193 original size:63 final size:63
Alignment explanation
Indices: 17121--17244 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
17111 CTAATGTCAC
* ** * *
17121 TCTTAGGTAGGCTCTGCGGCCCTGAGATC-ATTCTCGGGTAGGCCCT-ACGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATCTA-TCTCGGGTAGGCCCTCA-GGCCCTAAGATGTGT
* *
17184 TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGT
17245 TCCCTTAGGG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
63 50 0.96
64 2 0.04
ACGTcount: A:0.18, C:0.28, G:0.28, T:0.26
Consensus pattern (63 bp):
TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGTGT
Found at i:17195 original size:32 final size:31
Alignment explanation
Indices: 17104--17205 Score: 89
Period size: 31 Copynumber: 3.3 Consensus size: 31
17094 TGGAAAATTT
* * *
17104 TACGGACCTAATG-TCACTCTTAGGTAGGCTC
1 TACGGCCCTAA-GATCATTCTTAGGTAGGCCC
* * **
17135 TGCGGCCCTGAGATCATTCTCGGGTAGGCCC
1 TACGGCCCTAAGATCATTCTTAGGTAGGCCC
**
17166 TACGGCCCTAAGATGTGTTCTTAGGTAGGCCC
1 TACGGCCCTAAGAT-CATTCTTAGGTAGGCCC
*
17198 CACGGCCC
1 TACGGCCC
17206 CGAAATCTAT
Statistics
Matches: 55, Mismatches: 14, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
30 1 0.02
31 34 0.62
32 20 0.36
ACGTcount: A:0.18, C:0.30, G:0.27, T:0.25
Consensus pattern (31 bp):
TACGGCCCTAAGATCATTCTTAGGTAGGCCC
Found at i:17314 original size:26 final size:26
Alignment explanation
Indices: 17261--17314 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
17251 AGGGTAACTC
*
17261 TTTTATGAGATTTACTGCAGTATAAT
1 TTTTATGAGATTTACTGCACTATAAT
* *
17287 TTTTATGAGATTTACTGGACTATGAT
1 TTTTATGAGATTTACTGCACTATAAT
17313 TT
1 TT
17315 GTTTAGTGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.07, G:0.17, T:0.48
Consensus pattern (26 bp):
TTTTATGAGATTTACTGCACTATAAT
Found at i:27483 original size:496 final size:496
Alignment explanation
Indices: 26550--27542 Score: 1941
Period size: 496 Copynumber: 2.0 Consensus size: 496
26540 TCCATTTAAA
* *
26550 TACAAGAGCAATTCTAATTTGGTGGTTTAAGTTTAGGGTTTAAAATTTAGAATTTTAAAAATATT
1 TACAAGAGCAATTATAATTTAGTGGTTTAAGTTTAGGGTTTAAAATTTAGAATTTTAAAAATATT
26615 TCATTAAGTAATTTGTGTTTGAATCGCCTTAAGAACACATCTCCTCATAAGATTTTCAATTGTGA
66 TCATTAAGTAATTTGTGTTTGAATCGCCTTAAGAACACATCTCCTCATAAGATTTTCAATTGTGA
26680 AAGTAAGTGCATGTAAATTGTACCACAAGAACTAGAGGTAGGCATATTAATCTATTATTGTTAAT
131 AAGTAAGTGCATGTAAATTGTACCACAAGAACTAGAGGTAGGCATATTAATCTATTATTGTTAAT
26745 CATAACTGTTAATCAGTATAACTGTTATATTTTATATATTAATTAACTAAATCGCTAAAGTCAAA
196 CATAACTGTTAATCAGTATAACTGTTATATTTTATATATTAATTAACTAAATCGCTAAAGTCAAA
26810 TTATTTCAGTTAACCAATATGCTAAAAATGATAATAAATGATTACGATTATGGATTTCGAAAAAT
261 TTATTTCAGTTAACCAATATGCTAAAAATGATAATAAATGATTACGATTATGGATTTCGAAAAAT
26875 AATTATTCATCGAATAAAAATGATTAGATTATAGATATATCTTAAGGAAAAATAAAAGAATATTA
326 AATTATTCATCGAATAAAAATGATTAGATTATAGATATATCTTAAGGAAAAATAAAAGAATATTA
*
26940 ATTGTTTCATGTTTGTTAAAGATTTATCTTTGAAACTATGATAGTAAATTGAACTATTATTATGA
391 ATTGTTTCACGTTTGTTAAAGATTTATCTTTGAAACTATGATAGTAAATTGAACTATTATTATGA
27005 GTTGAGCTTTGTAATATGATTAAATTAATTTTCGTGTACTT
456 GTTGAGCTTTGTAATATGATTAAATTAATTTTCGTGTACTT
27046 TACAAGAGCAATTATAATTTAGTGGTTTAAGTTTAGGGTTTAAAATTTAGAATTTTAAAAATATT
1 TACAAGAGCAATTATAATTTAGTGGTTTAAGTTTAGGGTTTAAAATTTAGAATTTTAAAAATATT
27111 TCATTAAGTAATTTGTGTTTGAATCGCCTTAAGAACACATCTCCTCATAAGATTTTCAATTGTGA
66 TCATTAAGTAATTTGTGTTTGAATCGCCTTAAGAACACATCTCCTCATAAGATTTTCAATTGTGA
27176 AAGTAAGTGCATGTAAATTGTACCACAAGAACTAGAGGTAGGCATATTAATCTATTATTGTTAAT
131 AAGTAAGTGCATGTAAATTGTACCACAAGAACTAGAGGTAGGCATATTAATCTATTATTGTTAAT
*
27241 CATAACTGTTAATCAGTATAACTGTTATATTTTATATATTAATTAACTAAATCGTTAAAGTCAAA
196 CATAACTGTTAATCAGTATAACTGTTATATTTTATATATTAATTAACTAAATCGCTAAAGTCAAA
27306 TTATTTCAGTTAACCAATATGCTAAAAATGATAATAAATGATTACGATTATGGATTTCGAAAAAT
261 TTATTTCAGTTAACCAATATGCTAAAAATGATAATAAATGATTACGATTATGGATTTCGAAAAAT
27371 AATTATTCATCGAATAAAAATGATTAGATTATAGATATATCTTAAGGAAAAATAAAAGAATATTA
326 AATTATTCATCGAATAAAAATGATTAGATTATAGATATATCTTAAGGAAAAATAAAAGAATATTA
*
27436 ATTGTTTCACGTTTGTTAAAGATTTATCTTTGAAACTATGATAGTAAATTGAACTATTGTTATGA
391 ATTGTTTCACGTTTGTTAAAGATTTATCTTTGAAACTATGATAGTAAATTGAACTATTATTATGA
27501 GTTGAGCTTTGTAATATGATTAAATTAATTTTCGTGTACTT
456 GTTGAGCTTTGTAATATGATTAAATTAATTTTCGTGTACTT
27542 T
1 T
27543 TTTTTATTAA
Statistics
Matches: 492, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
496 492 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (496 bp):
TACAAGAGCAATTATAATTTAGTGGTTTAAGTTTAGGGTTTAAAATTTAGAATTTTAAAAATATT
TCATTAAGTAATTTGTGTTTGAATCGCCTTAAGAACACATCTCCTCATAAGATTTTCAATTGTGA
AAGTAAGTGCATGTAAATTGTACCACAAGAACTAGAGGTAGGCATATTAATCTATTATTGTTAAT
CATAACTGTTAATCAGTATAACTGTTATATTTTATATATTAATTAACTAAATCGCTAAAGTCAAA
TTATTTCAGTTAACCAATATGCTAAAAATGATAATAAATGATTACGATTATGGATTTCGAAAAAT
AATTATTCATCGAATAAAAATGATTAGATTATAGATATATCTTAAGGAAAAATAAAAGAATATTA
ATTGTTTCACGTTTGTTAAAGATTTATCTTTGAAACTATGATAGTAAATTGAACTATTATTATGA
GTTGAGCTTTGTAATATGATTAAATTAATTTTCGTGTACTT
Found at i:28352 original size:43 final size:42
Alignment explanation
Indices: 28299--28452 Score: 195
Period size: 43 Copynumber: 3.6 Consensus size: 42
28289 TTAGGGACAT
28299 ATAGGCACCTCTAGTAATTTTTTTCTCTTTTTTACTAGAGCCAG
1 ATAGGCACCTCTAGTAATTTTTTTCTCTTTTTT--TAGAGCCAG
* * *
28343 ATAGG-ACCTCTAGTAATTTTTTCCCTTTTTTTTGTAGAGCCTG
1 ATAGGCACCTCTAGTAATTTTTT-TCTCTTTTTT-TAGAGCCAG
28386 ATAGGCACCTCTAGTAATTTTTTAT-TCTCTTTTTTAGAGCCAG
1 ATAGGCACCTCTAGTAATTTTTT-TCTCT-TTTTTTAGAGCCAG
* *
28429 ATAGGCACCTCTAGCATTTTTTTT
1 ATAGGCACCTCTAGTAATTTTTTT
28453 TATGGGAGTT
Statistics
Matches: 97, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
42 1 0.01
43 61 0.63
44 35 0.36
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.45
Consensus pattern (42 bp):
ATAGGCACCTCTAGTAATTTTTTTCTCTTTTTTTAGAGCCAG
Found at i:31865 original size:139 final size:137
Alignment explanation
Indices: 31424--31982 Score: 529
Period size: 139 Copynumber: 4.0 Consensus size: 137
31414 AACCTAAGGG
* * * * * *
31424 TTAAACCAAAAAGTGTAGGCTCTAATATTAATCCTAATCATTTTTAGTGAATTATTGAATT-GAA
1 TTAAACCTAAAA-TGGAGGCTCTAATATT-AGCCTAATCAATTTTAATCAATTATTG-ATTCGAA
* * * * * * * *
31488 TAGTCAAAATGGAACCTCGAGGATAAGCGAGCACCAAATCAAAAATTCTCCTAGATTAAAGGACT
63 TAATTAAAATGGAACCTCGAGTAAAAGCGAGAACCAAATTAAAAATTCTCCTAAATTTAAGGACT
* * *
31553 AAGTTTGGAA
128 AAATGTGAAA
* * * * * * * * *
31563 TTAAACCTAAAACGGAGGCTCTAAAAATTAACCTATTTAATTGTAATCAATTACTGACTCAAATA
1 TTAAACCTAAAATGGAGGCTCT-AATATTAGCCTAATCAATTTTAATCAATTATTGATTCGAATA
* * * * *
31628 ATTAAAATGGAACCTCGAATAAAAGTGAGAACCAAATAAAACAATTCTCCTAAATTTAAGAAATA
65 ATTAAAATGGAACCTCGAGTAAAAGCGAGAACCAAATTAAA-AATTCTCCTAAATTTAAGGACTA
*
31693 AGTGTGAAA
129 AATGTGAAA
31702 TTAAACCTAAAATGGA-GCTTCTAATTATTAGCCTAATCAATTTTAATCAATTATTTGATTCGAA
1 TTAAACCTAAAATGGAGGC-TCTAA-TATTAGCCTAATCAATTTTAATCAATTA-TTGATTCGAA
* *
31766 TGATTAAAATGGAACCTCGAGCAAAAGCGAGAACCAAATTAAAAATTAC-CCTAAATTTAAGGAC
63 TAATTAAAATGGAACCTCGAGTAAAAGCGAGAACCAAATTAAAAATT-CTCCTAAATTTAAGGAC
31830 TAAATGTGAAA
127 TAAATGTGAAA
* * * * *
31841 TTAAGCCTAAAATAGAGGCTCTAATATTAGTTCCAAAT-ATTTTTAAACAATTATTTGATTCGAA
1 TTAAACCTAAAATGGAGGCTCTAATATTAG--CCTAATCAATTTTAATCAATTA-TTGATTCGAA
* * ** *
31905 TAATTAAAATGCAACCTCCAGTAAAAGTC-ATG-ACTGAATTAAGAATT-TACCTAAATTTAAGG
63 TAATTAAAATGGAACCTCGAGTAAAAG-CGA-GAACCAAATTAAAAATTCT-CCTAAATTTAAGG
*
31967 ACTAAATTTGAAA
125 ACTAAATGTGAAA
31980 TTA
1 TTA
31983 GGCCTAAAGT
Statistics
Matches: 348, Mismatches: 58, Indels: 28
0.80 0.13 0.06
Matches are distributed among these distances:
137 2 0.01
138 74 0.21
139 217 0.62
140 55 0.16
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.30
Consensus pattern (137 bp):
TTAAACCTAAAATGGAGGCTCTAATATTAGCCTAATCAATTTTAATCAATTATTGATTCGAATAA
TTAAAATGGAACCTCGAGTAAAAGCGAGAACCAAATTAAAAATTCTCCTAAATTTAAGGACTAAA
TGTGAAA
Found at i:33610 original size:20 final size:20
Alignment explanation
Indices: 33541--33649 Score: 103
Period size: 20 Copynumber: 5.4 Consensus size: 20
33531 TTTTCCTAAT
33541 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * ** *
33561 TTGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
* * *
33582 TCACAATGCGATTACGTATA
1 TCGCAATGCGAATACGTAAA
*
33602 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATACGTAAA
*
33622 TCGCAATGCAAAT-CTGTAAA
1 TCGCAATGCGAATAC-GTAAA
33642 TCGCAATG
1 TCGCAATG
33650 AGATTCTGAC
Statistics
Matches: 68, Mismatches: 19, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
20 55 0.81
21 13 0.19
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:33657 original size:20 final size:20
Alignment explanation
Indices: 33601--33657 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
33591 GATTACGTAT
* *
33601 ATCGCAATGCGAATATGTAA
1 ATCGCAATGAGAATCTGTAA
33621 ATCGCAATGCA-AATCTGTAA
1 ATCGCAATG-AGAATCTGTAA
*
33641 ATCGCAATGAGATTCTG
1 ATCGCAATGAGAATCTG
33658 ACTATCGCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 1 0.03
20 31 0.97
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (20 bp):
ATCGCAATGAGAATCTGTAA
Found at i:34560 original size:24 final size:24
Alignment explanation
Indices: 34503--34562 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
34493 TAGTCAGTAT
34503 TCGAAATTTGATCTTGGTCAATAC
1 TCGAAATTTGATCTTGGTCAATAC
* * *
34527 CCGGACTTTGATCTTGGTCAATAC
1 TCGAAATTTGATCTTGGTCAATAC
*
34551 TCGAATTTTGAT
1 TCGAAATTTGAT
34563 GATTTTTCAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.38
Consensus pattern (24 bp):
TCGAAATTTGATCTTGGTCAATAC
Found at i:37081 original size:20 final size:20
Alignment explanation
Indices: 36993--37079 Score: 122
Period size: 20 Copynumber: 4.3 Consensus size: 20
36983 CAACGTGGAA
36993 ATCGCAACGC-GAATATGACT
1 ATCGCAACGCGGAA-ATGACT
*
37013 ATCGCAACACGGAAATGACT
1 ATCGCAACGCGGAAATGACT
*
37033 ATCGCAACGCGGAATTGACT
1 ATCGCAACGCGGAAATGACT
*
37053 ATCGCAATGCGGAAATGACT
1 ATCGCAACGCGGAAATGACT
*
37073 ATTGCAA
1 ATCGCAA
37080 TGAGAGAATC
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
20 57 0.95
21 3 0.05
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:37107 original size:19 final size:19
Alignment explanation
Indices: 37086--37146 Score: 104
Period size: 19 Copynumber: 3.2 Consensus size: 19
37076 GCAATGAGAG
* *
37086 AATCGCAATGTGAAATGAG
1 AATCGCAATGCGAAATGAA
37105 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
37124 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
37143 AATC
1 AATC
37147 ACAACGAGTG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.18
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:37336 original size:14 final size:15
Alignment explanation
Indices: 37306--37343 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
37296 CATCAATTAA
37306 ACAAATCAACATTTT
1 ACAAATCAACATTTT
*
37321 ACAAATCATC-TTTT
1 ACAAATCAACATTTT
37335 ACAAATCAA
1 ACAAATCAA
37344 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (15 bp):
ACAAATCAACATTTT
Found at i:39322 original size:34 final size:34
Alignment explanation
Indices: 39274--39427 Score: 139
Period size: 34 Copynumber: 4.4 Consensus size: 34
39264 TGAAACTTAA
*
39274 AATCGCAACGCGAAAATGACTATCGCAACGAGAG
1 AATCGCAATGCGAAAATGACTATCGCAACGAGAG
* ** ** * *
39308 AATCGCAATACG-AAATGAAAATCGCAATAACAA
1 AATCGCAATGCGAAAATGACTATCGCAACGAGAG
* *
39341 AATCGCAACGCGAAAATGACTATCGCAATGCGAAAAAG
1 AATCGCAATGCGAAAATGACTATCGCAA--CG--AGAG
**
39379 ACTATCGCAATGCGAATTTGACTATCGCAACGAGAG
1 A--ATCGCAATGCGAAAATGACTATCGCAACGAGAG
39415 AATCGCAATGCGA
1 AATCGCAATGCGA
39428 TTTTCATTTC
Statistics
Matches: 93, Mismatches: 20, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
33 25 0.27
34 35 0.38
36 4 0.04
38 5 0.05
40 24 0.26
ACGTcount: A:0.43, C:0.21, G:0.20, T:0.16
Consensus pattern (34 bp):
AATCGCAATGCGAAAATGACTATCGCAACGAGAG
Found at i:39367 original size:20 final size:20
Alignment explanation
Indices: 39342--39410 Score: 93
Period size: 20 Copynumber: 3.5 Consensus size: 20
39332 CAATAACAAA
39342 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* *
39362 ATCGCAATGCGAAAAAGACT
1 ATCGCAACGCGAAAATGACT
* **
39382 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
39402 ATCGCAACG
1 ATCGCAACG
39411 AGAGAATCGC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:39474 original size:34 final size:34
Alignment explanation
Indices: 39435--39540 Score: 122
Period size: 40 Copynumber: 2.9 Consensus size: 34
39425 CGATTTTCAT
39435 TTCGCATTGCGATTCTTTCATTGCGATAGTCAAA
1 TTCGCATTGCGATTCTTTCATTGCGATAGTCAAA
**
39469 TTCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCATT
1 TTCGCATTGCGAT--TC--TTT--CATTGCGATAGTCAAA
* *
39509 TTCGCATTGCGATTCTCTCGTTGCGATAGTCA
1 TTCGCATTGCGATTCTTTCATTGCGATAGTCA
39541 TTTTCGCGTT
Statistics
Matches: 62, Mismatches: 4, Indels: 12
0.79 0.05 0.15
Matches are distributed among these distances:
34 26 0.42
36 4 0.06
38 5 0.08
40 27 0.44
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.39
Consensus pattern (34 bp):
TTCGCATTGCGATTCTTTCATTGCGATAGTCAAA
Found at i:39478 original size:20 final size:20
Alignment explanation
Indices: 39453--39598 Score: 187
Period size: 20 Copynumber: 7.6 Consensus size: 20
39443 GCGATTCTTT
**
39453 CATTGCGATAGTCAAATTCG
1 CATTGCGATAGTCATTTTCG
39473 CATTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
39493 CATTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
*
39513 CATTGCGAT--TC--TCTCG
1 CATTGCGATAGTCATTTTCG
39529 --TTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
* * *
39547 CGTTGCAATAGTTATTTTCG
1 CATTGCGATAGTCATTTTCG
*
39567 CGTTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
39587 CATTGCGATAGT
1 CATTGCGATAGT
39599 AAACTACTAT
Statistics
Matches: 111, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
14 7 0.06
16 6 0.05
18 6 0.05
20 92 0.83
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (20 bp):
CATTGCGATAGTCATTTTCG
Found at i:39537 original size:74 final size:74
Alignment explanation
Indices: 39417--39595 Score: 252
Period size: 74 Copynumber: 2.4 Consensus size: 74
39407 AACGAGAGAA
* ** * *
39417 TCGCAATGCGATTTTCA-TTTCGCATTGCGATTCTTTCATTGCGATAGTCAAATTCGCATTGCGA
1 TCGCATTGCGATAGTCATTTTCGCATTGCGATTCTCTCATTGCGATAGTCAAATTCGCATTGCAA
39481 TAGTCATTT
66 TAGTCATTT
* ** *
39490 TCGCATTGCGATAGTCATTTTCGCATTGCGATTCTCTCGTTGCGATAGTCATTTTCGCGTTGCAA
1 TCGCATTGCGATAGTCATTTTCGCATTGCGATTCTCTCATTGCGATAGTCAAATTCGCATTGCAA
*
39555 TAGTTATTT
66 TAGTCATTT
*
39564 TCGCGTTGCGATAGTCATTTTCGCATTGCGAT
1 TCGCATTGCGATAGTCATTTTCGCATTGCGAT
39596 AGTAAACTAC
Statistics
Matches: 94, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
73 14 0.15
74 80 0.85
ACGTcount: A:0.19, C:0.21, G:0.20, T:0.40
Consensus pattern (74 bp):
TCGCATTGCGATAGTCATTTTCGCATTGCGATTCTCTCATTGCGATAGTCAAATTCGCATTGCAA
TAGTCATTT
Found at i:41501 original size:20 final size:20
Alignment explanation
Indices: 41478--41545 Score: 84
Period size: 20 Copynumber: 3.5 Consensus size: 20
41468 GAAACTTTAA
*
41478 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
41498 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
**
41518 ATCGCAACGCG-AAATGAAA
1 ATCGCAACGCGAAAATGACT
41537 ATCGCAACG
1 ATCGCAACG
41546 ACAGAATCGC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
19 13 0.32
20 28 0.68
ACGTcount: A:0.40, C:0.25, G:0.19, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:41998 original size:15 final size:15
Alignment explanation
Indices: 41978--42012 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
41968 GACTGAGTTG
41978 TATCACCATGGGCAA
1 TATCACCATGGGCAA
41993 TATCACCATGGGCAA
1 TATCACCATGGGCAA
42008 TATCA
1 TATCA
42013 TAATTAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (15 bp):
TATCACCATGGGCAA
Found at i:44047 original size:711 final size:709
Alignment explanation
Indices: 41993--44450 Score: 3865
Period size: 707 Copynumber: 3.5 Consensus size: 709
41983 CCATGGGCAA
* * *
41993 TATCACCATGGGCAATATCATAATTAACTTGATCCTCGTAATAAATGACAATTATATTTTTTCAG
1 TATCACCATGGGCAATATCATAATTAACTTGATCCTCCTAATCAATGACAATTATATCTTTTCAG
* * * *
42058 ATGGTGTAAGATTTTCATGAAGACAAAAGACCTTGCAAGTATTCACGGTTCGAAAATCATGAAGT
66 ATAGTGTAAGATTTTCATGAAGACAAAAGACCTTGCAAGTATTCAAGGTCCGAAAATAATGAAGT
* * *
42123 TAAGTGAGTTAGCAATGTTATTCATTTTTTAAGATGAGTCCAATAGGGATAAAGTTTTAAAGAAC
131 TAAGTGAGTTAGCAATGTTAATCA-TTTTTAAGATGAATCCAATAGGGATAAAGTTTTAAACAAC
* * * * *
42188 AATATATGCTCGCTGGAAAAATGGTTTTGACGAGGTAGAGGTTTGGTCGGATGAGATTGTGTGTT
195 AATATATGCTCGTTGGAAAAATGG-TTTGACAAGGTGGAGGTTTGGTCGGATGAGATTGAGTGTC
* * *
42253 GAAGCCGCCATACATGGTTGTCTTGTAAAGGTATTATAGTTGGGAGAGAGAATCAGTT-GTACCA
259 AAAGCCGCCGTACATGGTTGTCTTGTAAAGGTATTATAGTTGGGAGAGAGAATCGGTTGGTACCA
* * **
42317 AGTTCGACATCTTGTGAAAACACTTAGCGGCTA-TCTGCTGAGGGAAATTGAGATCATGCTAGAT
324 AGTTCGACATCCTGTGGAAACACTTAGCGGC-AGTCTGCTGAGGGAAATTGAGATCGGGCTAGAT
*
42381 TCTCATTGAGGCGACATAGTCTGAGTCGAGTTTTTCCAGATCAATAAAACATGTTAGTGCTAATG
388 TCTCATTGAGGCGACATAGTCTGAGTCGAGTTTTTCCAGATCTATAAAACATGTTAGTGCTAATG
** * *
42446 AAGATAGTCGTAGCAAGTC-CACGTAAGTGATTGATTTCCGAAAATAGATTTTGGTTTATCAGTT
453 AAGATAGTCGTAGTTAGTCTC-CGTAAATGATTGATTTCCAAAAATAGATTTTGGTTTATCAGTT
* *
42510 CACAAGATAGAAAACCAAGTTACAGGGGTTGGGCCCTATAGACTATAATCGGCAAATAACCGAAG
517 CACAAGATAGAAAA-CAAGTTACAGGGGTTGGGCCCTGTAGACTATAATCGACAAATAACCGAAG
*
42575 CAAAAATTTATTCCGATGATCAACAATGATTCTCAATCGGGTCCAAGCCTTGATCAAGCGTGAAT
581 CAAAAATTTATTCCGATGATCAACAATGATTCTCAATCGGGTCCAAGCCTTGATCAAGCTTGAAT
* * * *
42640 GTATAAAACAATTTAGTCTTCACATTAGTAACGTTATCATAAGTGTCAACTTTACTTACACTTG
646 GTACAAGACAATTTAGTCTTCACATTAGTAAGGTTATCATAAGTGTCAACTTTACTTACAATTG
* **
42704 TATCACCATGGGCAATATAATAATTAACTTGATCCTAGTAATCAATGACAATTATAT-TGTTTCA
1 TATCACCATGGGCAATATCATAATTAACTTGATCCTCCTAATCAATGACAATTATATCT-TTTCA
*
42768 GATAGTGTAAGATTTTC-TGGAAGACAAAAGACCTTGCAAGTGTTCAAGGTCCGAAAATAATGAA
65 GATAGTGTAAGATTTTCAT-GAAGACAAAAGACCTTGCAAGTATTCAAGGTCCGAAAATAATGAA
* * *
42832 G-T---TGAGTTAGCAATGTTAATCATTTTTTATGATGCATCCAAGAGGGATAAAGTTTTAAACA
129 GTTAAGTGAGTTAGCAATGTTAATCA-TTTTTAAGATGAATCCAATAGGGATAAAGTTTTAAACA
*
42893 ACAATATATGCTTGTTGGAAAAATGGTTTGACAAGGTGGAGGTTTGGTCGGATGAGATTGAGTGT
193 ACAATATATGCTCGTTGGAAAAATGGTTTGACAAGGTGGAGGTTTGGTCGGATGAGATTGAGTGT
* * *
42958 CGAAGCCGCCGTATATGGTTGTCTTGTAAAGGTATTATAGTTGGGAGAGAGAATCGGTTTGTACC
258 CAAAGCCGCCGTACATGGTTGTCTTGTAAAGGTATTATAGTTGGGAGAGAGAATCGGTTGGTACC
* * *
43023 AAGTCCGACATCCTGTGGAAACACTTAGCGACAGACTGCTGAGGGAAATTGAGATCGGGCTAGAT
323 AAGTTCGACATCCTGTGGAAACACTTAGCGGCAGTCTGCTGAGGGAAATTGAGATCGGGCTAGAT
* *
43088 TCCCATTGAGGCGACATAGTCTGAGTCGAGTTTTTCCAGATCTATAAAACATGTTATTGCTAATG
388 TCTCATTGAGGCGACATAGTCTGAGTCGAGTTTTTCCAGATCTATAAAACATGTTAGTGCTAATG
* *
43153 ATGATAGTCGTAGTTAGTCTCCGTAAATAATTGATTTCCAAAAATAGATTTTGGTTTATCAGTTC
453 AAGATAGTCGTAGTTAGTCTCCGTAAATGATTGATTTCCAAAAATAGATTTTGGTTTATCAGTTC
*
43218 ACAAGATAGAAAAACAAGTTACAAGGGTTGGGCCCTGTAGACTATAATCGACAAATAACCGAAGC
518 ACAAGATAG-AAAACAAGTTACAGGGGTTGGGCCCTGTAGACTATAATCGACAAATAACCGAAGC
*
43283 AAAAATTTATTTCGATGATCAACAATGATTCTCAATCGGGTCCAAGCCTTGATCAAGCTTGAATG
582 AAAAATTTATTCCGATGATCAACAATGATTCTCAATCGGGTCCAAGCCTTGATCAAGCTTGAATG
43348 TACAAGACAATTTAGTCTTCACATTAGTAAGGTTATCATAAGTGTCAA-TGTTACTTACAATTG
647 TACAAGACAATTTAGTCTTCACATTAGTAAGGTTATCATAAGTGTCAACT-TTACTTACAATTG
* *
43411 TATCAACATGGGCAATATCATAATTAACTTGATCCTCCTTATCAATGACAATTATATCTTTTCAG
1 TATCACCATGGGCAATATCATAATTAACTTGATCCTCCTAATCAATGACAATTATATCTTTTCAG
*
43476 ATAGTGTAAGATTTTCTTGAAGACAAAAGACCTTGCAAGTATTCAAGGTCCGAAAATAATGAAGT
66 ATAGTGTAAGATTTTCATGAAGACAAAAGACCTTGCAAGTATTCAAGGTCCGAAAATAATGAAGT
* * *
43541 TAAGTTAGTTAGCAATGTTACTCATATTTAATGATGAATCCAATAGGGATAAAGTTTTAAACAAC
131 TAAGTGAGTTAGCAATGTTAATCATTTTTAA-GATGAATCCAATAGGGATAAAGTTTTAAACAAC
*
43606 AATATATGCTCGTTGGAAAAATGGTTTGACAAGGTGGAGGTTTGTTCGGATGAGATTGAGTGTCA
195 AATATATGCTCGTTGGAAAAATGGTTTGACAAGGTGGAGGTTTGGTCGGATGAGATTGAGTGTCA
** * *
43671 AAGATGTCGTACATGGTTGTCTTGTAAAGGTATTATTAGTTGAGAGAGAGAATCGGTTGGTACCA
260 AAGCCGCCGTACATGGTTGTCTTGTAAAGGTATTA-TAGTTGGGAGAGAGAATCGGTTGGTACCA
* *
43736 AGTTTGACATCCTGTGGAAACACTTAGCGGCAGTCCGCTGAGGGAAATTGAGATCGGGCTAGATT
324 AGTTCGACATCCTGTGGAAACACTTAGCGGCAGTCTGCTGAGGGAAATTGAGATCGGGCTAGATT
* * * *
43801 CTCATTGAGGCGACATAGTCTGAGTCGAGTTTTTCCAAATCTATAAAATAGGTTAGTCCTAATGA
389 CTCATTGAGGCGACATAGTCTGAGTCGAGTTTTTCCAGATCTATAAAACATGTTAGTGCTAATGA
* *
43866 CGATAGTCGTAGTTAGTCTCCGTAAATGATTGATTTCCAAAAATATATTTTGGTTTATCAGTTCA
454 AGATAGTCGTAGTTAGTCTCCGTAAATGATTGATTTCCAAAAATAGATTTTGGTTTATCAGTTCA
* * * * *
43931 CAAGACAGAAAACAAGTTACAGGGGTTGGGACATGTATACTATAATCAACAAATAACCGAAGCAA
519 CAAGATAGAAAACAAGTTACAGGGGTTGGGCCCTGTAGACTATAATCGACAAATAACCGAAGCAA
* * *
43996 AAATTTATTCCGATGATCAACAATGATTCTCAATCGGATCCAATCCTTGATCAAGCTTGAATGTT
584 AAATTTATTCCGATGATCAACAATGATTCTCAATCGGGTCCAAGCCTTGATCAAGCTTGAATGTA
* *
44061 CAAGACAATTTTAGTCTTCACATTAGCAAGGTTATCATAAGTGTTAACTTTACTTACAATTG
649 CAAGACAA-TTTAGTCTTCACATTAGTAAGGTTATCATAAGTGTCAACTTTACTTACAATTG
* * *
44123 TATCACCATGGGCAATATCATAATTAACTTGATCTTCGTAGTCAATGACAATTATATCTTTTCAG
1 TATCACCATGGGCAATATCATAATTAACTTGATCCTCCTAATCAATGACAATTATATCTTTTCAG
* * * *
44188 ATAGTGTAATATTTTCATGAAGATAAAAGACCTTTCAAGTTTTCAAGGTCCGAAAATAATGAAGT
66 ATAGTGTAAGATTTTCATGAAGACAAAAGACCTTGCAAGTATTCAAGGTCCGAAAATAATGAAGT
* *
44253 TAAGTGAGTTAGCAATGTTAATCATTTTTGAAGATGGATCCAATAGGGATAAAGTTTTAAAGAAC
131 TAAGTGAGTTAGCAATGTTAATCATTTTT-AAGATGAATCCAATAGGGATAAAGTTTTAAACAAC
*
44318 AATATATGCTCGTTAGAAAAATGGTTTGACAAGGTGGAGGTTTGGTCGGATGAGATTGAGTGTCA
195 AATATATGCTCGTTGGAAAAATGGTTTGACAAGGTGGAGGTTTGGTCGGATGAGATTGAGTGTCA
* *
44383 AAGCCGCCGTACATGGTTGTCTTGTAAAGGTATTACAGTTGGGAGAGATAATCGGTTGGTACCAA
260 AAGCCGCCGTACATGGTTGTCTTGTAAAGGTATTATAGTTGGGAGAGAGAATCGGTTGGTACCAA
44448 GTT
325 GTT
44451 GGTGAAGAGA
Statistics
Matches: 1611, Mismatches: 118, Indels: 36
0.91 0.07 0.02
Matches are distributed among these distances:
706 93 0.06
707 553 0.34
708 8 0.00
710 8 0.00
711 410 0.25
712 536 0.33
713 3 0.00
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.31
Consensus pattern (709 bp):
TATCACCATGGGCAATATCATAATTAACTTGATCCTCCTAATCAATGACAATTATATCTTTTCAG
ATAGTGTAAGATTTTCATGAAGACAAAAGACCTTGCAAGTATTCAAGGTCCGAAAATAATGAAGT
TAAGTGAGTTAGCAATGTTAATCATTTTTAAGATGAATCCAATAGGGATAAAGTTTTAAACAACA
ATATATGCTCGTTGGAAAAATGGTTTGACAAGGTGGAGGTTTGGTCGGATGAGATTGAGTGTCAA
AGCCGCCGTACATGGTTGTCTTGTAAAGGTATTATAGTTGGGAGAGAGAATCGGTTGGTACCAAG
TTCGACATCCTGTGGAAACACTTAGCGGCAGTCTGCTGAGGGAAATTGAGATCGGGCTAGATTCT
CATTGAGGCGACATAGTCTGAGTCGAGTTTTTCCAGATCTATAAAACATGTTAGTGCTAATGAAG
ATAGTCGTAGTTAGTCTCCGTAAATGATTGATTTCCAAAAATAGATTTTGGTTTATCAGTTCACA
AGATAGAAAACAAGTTACAGGGGTTGGGCCCTGTAGACTATAATCGACAAATAACCGAAGCAAAA
ATTTATTCCGATGATCAACAATGATTCTCAATCGGGTCCAAGCCTTGATCAAGCTTGAATGTACA
AGACAATTTAGTCTTCACATTAGTAAGGTTATCATAAGTGTCAACTTTACTTACAATTG
Found at i:46263 original size:21 final size:21
Alignment explanation
Indices: 46237--46289 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
46227 AAATGATCGG
46237 TTTGACCGGTTTTGGAACTAT
1 TTTGACCGGTTTTGGAACTAT
46258 TTTGACCGGTTTTGGAACTAT
1 TTTGACCGGTTTTGGAACTAT
*
46279 TTTAACCGGTT
1 TTTGACCGGTT
46290 CCAACCCGAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.19, C:0.15, G:0.23, T:0.43
Consensus pattern (21 bp):
TTTGACCGGTTTTGGAACTAT
Found at i:47032 original size:36 final size:36
Alignment explanation
Indices: 46985--47057 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
46975 AGTTCTGGAA
46985 TTAAGTGATAAAAGAATCAGCCATGGATATGTAGAT
1 TTAAGTGATAAAAGAATCAGCCATGGATATGTAGAT
*
47021 TTAAGTGATAAAAGAATCAGCCATTGATATGTAGAT
1 TTAAGTGATAAAAGAATCAGCCATGGATATGTAGAT
47057 T
1 T
47058 ATAATTTATC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (36 bp):
TTAAGTGATAAAAGAATCAGCCATGGATATGTAGAT
Found at i:48830 original size:24 final size:24
Alignment explanation
Indices: 48802--48860 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
48792 AAATATTTTA
48802 TCTGATTTCTGACTTAAATTCTGT
1 TCTGATTTCTGACTTAAATTCTGT
* *
48826 TCTGA-TACATGACTTGAATTCTGT
1 TCTGATTTC-TGACTTAAATTCTGT
48850 TCTGATTTCTG
1 TCTGATTTCTG
48861 TTCTGATATC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 2 0.07
24 26 0.87
25 2 0.07
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.47
Consensus pattern (24 bp):
TCTGATTTCTGACTTAAATTCTGT
Found at i:48860 original size:36 final size:36
Alignment explanation
Indices: 48820--48896 Score: 104
Period size: 36 Copynumber: 2.1 Consensus size: 36
48810 CTGACTTAAA
48820 TTCTGTTCTGATA-CATGACT-TGAATTCTGTTCTGAT
1 TTCTGTTCTGATATC-TG-CTCTGAATTCTGTTCTGAT
* *
48856 TTCTGTTCTGATATCTGTTCTGAATTCTGTTTTGAT
1 TTCTGTTCTGATATCTGCTCTGAATTCTGTTCTGAT
48892 TTCTG
1 TTCTG
48897 ATATCTCCGT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
35 1 0.03
36 35 0.95
37 1 0.03
ACGTcount: A:0.16, C:0.16, G:0.17, T:0.52
Consensus pattern (36 bp):
TTCTGTTCTGATATCTGCTCTGAATTCTGTTCTGAT
Found at i:48861 original size:12 final size:12
Alignment explanation
Indices: 48844--48896 Score: 79
Period size: 12 Copynumber: 4.4 Consensus size: 12
48834 ATGACTTGAA
48844 TTCTGTTCTGAT
1 TTCTGTTCTGAT
48856 TTCTGTTCTGAT
1 TTCTGTTCTGAT
* *
48868 ATCTGTTCTGAA
1 TTCTGTTCTGAT
*
48880 TTCTGTTTTGAT
1 TTCTGTTCTGAT
48892 TTCTG
1 TTCTG
48897 ATATCTCCGT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.11, C:0.15, G:0.17, T:0.57
Consensus pattern (12 bp):
TTCTGTTCTGAT
Found at i:50729 original size:139 final size:138
Alignment explanation
Indices: 50404--50892 Score: 479
Period size: 139 Copynumber: 3.5 Consensus size: 138
50394 TTGAATAGTC
* * * * * * * *
50404 AAAATGGAACCTCGAGGATAAGCGA-GCACCAAATCAAAAATTCTCCTAGATTAAAGGACTAAGT
1 AAAATGGAACCTCCAGTAAAAGCGATG-ACCAAATTAAAAATTCTCCTAAATTTAAGAACTAAAT
* * * * * * * * * * *
50468 TTGGAATTAAACCTAAAACGGAGGCTCTAAATATTAACCTATTTAATTGTAATCAATTACTT-AC
65 GTGAAATTAAACCTAAAATGGAGACTCT-AATATTAGCCTAATCAATTTTAAACAATTATTTGAT
*
50532 TCAAATAATT
129 TCGAATAATT
* * * ** * *
50542 AAAATGGAACCTCGAATAAAAGTGACAACCAAA-TACAAAATTCTCCTAAATTTAAGAAATAAGT
1 AAAATGGAACCTCCAGTAAAAGCGATGACCAAATTA-AAAATTCTCCTAAATTTAAGAACTAAAT
** *
50606 GTGAAATTAAACCTAAAATGGAGTTTCTAATTATTAGCCTAATCAATTTTAACCAATTATTTGAT
65 GTGAAATTAAACCTAAAATGGAGACTCTAA-TATTAGCCTAATCAATTTTAAACAATTATTTGAT
*
50671 TCGAATGATT
129 TCGAATAATT
* *
50681 AAAATGGAACCTCCAGCAAAAGCGATGACCAAATTAAAAATTAC-CCTAAATTTAAGGACTAAAT
1 AAAATGGAACCTCCAGTAAAAGCGATGACCAAATTAAAAATT-CTCCTAAATTTAAGAACTAAAT
* * *
50745 GTGAAATTAAGCCTAAAATAGAGACTCTAATATTAGTCCCAAATC-ATTTTAAACAATTATTTGA
65 GTGAAATTAAACCTAAAATGGAGACTCTAATATTAG--CCTAATCAATTTTAAACAATTATTTGA
50809 TTCGAATAATT
128 TTCGAATAATT
* ** *
50820 AAAATGCAACCTCCAGTAAAAGTC-ATGACTGAATTAAGAATT-TACCTAAATTTAAGAACTAAA
1 AAAATGGAACCTCCAGTAAAAG-CGATGACCAAATTAAAAATTCT-CCTAAATTTAAGAACTAAA
*
50883 TTTGAAATTA
64 TGTGAAATTA
50893 GGCCTAAAGT
Statistics
Matches: 293, Mismatches: 47, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
137 3 0.01
138 105 0.36
139 175 0.60
140 10 0.03
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (138 bp):
AAAATGGAACCTCCAGTAAAAGCGATGACCAAATTAAAAATTCTCCTAAATTTAAGAACTAAATG
TGAAATTAAACCTAAAATGGAGACTCTAATATTAGCCTAATCAATTTTAAACAATTATTTGATTC
GAATAATT
Found at i:60574 original size:28 final size:29
Alignment explanation
Indices: 60531--60685 Score: 199
Period size: 29 Copynumber: 5.3 Consensus size: 29
60521 AATAATTTTT
*
60531 AGAATGTCACATTTTTCAAAATATTTCTC
1 AGAATGTCACATTTTTCAAAATATTTCCC
60560 AGAATGTCAC-TTTTTCAAAATATTTCCC
1 AGAATGTCACATTTTTCAAAATATTTCCC
* *
60588 AGAATGTCACTTTTTTAAAAAATATTTCCC
1 AGAATGTCACATTTTT-CAAAATATTTCCC
*
60618 AGAATGTCACATTTTTCACAAAAATTT-CC
1 AGAATGTCACATTTTTCA-AAATATTTCCC
* *
60647 AGAATGTCACCTTTTTCACAAA-AATTCCC
1 AGAATGTCACATTTTTCA-AAATATTTCCC
*
60676 TGAATGTCAC
1 AGAATGTCAC
60686 TAGGTCGAGT
Statistics
Matches: 114, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
28 30 0.26
29 50 0.44
30 34 0.30
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.37
Consensus pattern (29 bp):
AGAATGTCACATTTTTCAAAATATTTCCC
Found at i:66817 original size:31 final size:31
Alignment explanation
Indices: 66777--66835 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
66767 CTAAGGGAAC
*
66777 ATCTTAGGGCCTG-AGAGCCTACCCAAGAATG
1 ATCTCAGGGCC-GCAGAGCCTACCCAAGAATG
*
66808 ATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ATCTCAGGGCCGCAGAGCCTACCCAAGA
66836 GTCACATTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 1 0.04
31 24 0.96
ACGTcount: A:0.29, C:0.29, G:0.25, T:0.17
Consensus pattern (31 bp):
ATCTCAGGGCCGCAGAGCCTACCCAAGAATG
Found at i:67764 original size:29 final size:29
Alignment explanation
Indices: 67722--67882 Score: 182
Period size: 29 Copynumber: 5.6 Consensus size: 29
67712 CACATTCGAA
*
67722 AATTCCCAAAATGTCACCTTTTTAAAAAT
1 AATTCCCAAAATGTCACCTTTTTCAAAAT
**
67751 AATTCCCATCATGTCACCTTTTTCAAAAT
1 AATTCCCAAAATGTCACCTTTTTCAAAAT
*
67780 AATTCCCAAAATGTTA-CTTTTTCAAAAT
1 AATTCCCAAAATGTCACCTTTTTCAAAAT
* * *
67808 ATTTCTCAAAATATCACCTTTTTCAAAAT
1 AATTCCCAAAATGTCACCTTTTTCAAAAT
* * * *
67837 -ATATCCCAGAATATTACCTTTTTTAAAAT
1 AAT-TCCCAAAATGTCACCTTTTTCAAAAT
* *
67866 ATTTCCCAGAATGTCAC
1 AATTCCCAAAATGTCAC
67883 TGGGTCGGGT
Statistics
Matches: 111, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
28 25 0.23
29 85 0.77
30 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.04, T:0.38
Consensus pattern (29 bp):
AATTCCCAAAATGTCACCTTTTTCAAAAT
Found at i:67825 original size:57 final size:58
Alignment explanation
Indices: 67722--67882 Score: 191
Period size: 57 Copynumber: 2.8 Consensus size: 58
67712 CACATTCGAA
* * ** *
67722 AATTCCCAAAATGTCACCTTTTTAAAAATAATTCCCATCATGTCACCTTTTTCAAAAT
1 AATTCCCAAAATGTTACCTTTTTAAAAATATTTCCCAAAATATCACCTTTTTCAAAAT
* *
67780 AATTCCCAAAATGTTA-CTTTTTCAAAATATTTCTCAAAATATCACCTTTTTCAAAAT
1 AATTCCCAAAATGTTACCTTTTTAAAAATATTTCCCAAAATATCACCTTTTTCAAAAT
* * * * *
67837 -ATATCCCAGAATATTACCTTTTTTAAAATATTTCCCAGAATGTCAC
1 AAT-TCCCAAAATGTTACCTTTTTAAAAATATTTCCCAAAATATCAC
67883 TGGGTCGGGT
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
56 2 0.02
57 46 0.52
58 40 0.45
ACGTcount: A:0.37, C:0.22, G:0.04, T:0.38
Consensus pattern (58 bp):
AATTCCCAAAATGTTACCTTTTTAAAAATATTTCCCAAAATATCACCTTTTTCAAAAT
Found at i:67904 original size:17 final size:17
Alignment explanation
Indices: 67884--67927 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
67874 GAATGTCACT
67884 GGGTCGGGTCGGTCAAC
1 GGGTCGGGTCGGTCAAC
*
67901 GGGTCGGATCGGTCAAC
1 GGGTCGGGTCGGTCAAC
*
67918 GGATCGGGTC
1 GGGTCGGGTC
67928 AAACCGATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.14, C:0.23, G:0.45, T:0.18
Consensus pattern (17 bp):
GGGTCGGGTCGGTCAAC
Found at i:68964 original size:139 final size:135
Alignment explanation
Indices: 68798--69287 Score: 407
Period size: 139 Copynumber: 3.5 Consensus size: 135
68788 ACCTAAGGGG
* * * * *
68798 TTAAACCAAAAAGTGCAGGCTCTAATATTAATCCTAATCATTTTTAGTGAATTATTGAATTGAAT
1 TTAAACCTAAAA-TGGAGGCTCTAATATTAA-CCTAATCAATTTTAATCAATTATTGAATTGAAT
* * * *
68863 AGTCAAAATGGAACCTCGAGGATAAGAGAACACCAAATAAAAAATTCTCCTAGATTAAAGGACTA
64 AGTTAAAATGGAACCTCGAGCAAAAGAGAA-ACCAAATAAAAAATTCTCCTA-ATTTAAGGACTA
* *
68928 AGTTTGGAA
127 AGTGTGAAA
* * * * * **
68937 TTAAACCTAAAATGGAGGCTCTAAATATTAACCTATTTAATTGTAATCAATTACTGACTCAAATA
1 TTAAACCTAAAATGGAGGCTCT-AATATTAACCTAATCAATTTTAATCAATTATTGAATTGAATA
* * * * ** * * *
69002 ATTAAATTGGAACTTAGAATAAAAGTGAGAACCAAATAAAAAAATTCTCCTAATTTAAGAAATAA
65 GTTAAAATGGAACCTCGAGCAAAAGAGA-AACCAAAT-AAAAAATTCTCCTAATTTAAGGACTAA
69067 GTGTGAAA
128 GTGTGAAA
* * *
69075 TTAAACCTACAATGGA-GCTTCTAATTATTAGCCTAATCAATTTTAACCAATTATTTG-ATTAGA
1 TTAAACCTAAAATGGAGGC-TCTAA-TATTAACCTAATCAATTTTAATCAATTA-TTGAATT-GA
* * *
69138 AT-GATTAAAATGGAACCTCGAGCAAAAGCGAGGACCAAATTAAAAATTAC-CCTAAATTTAAGG
62 ATAG-TTAAAATGGAACCTCGAGCAAAAGAGA-AACCAAATAAAAAATT-CTCCT-AATTTAAGG
*
69201 ACTAAATGTGAAA
123 ACTAAGTGTGAAA
* * * * *
69214 TTAAGCCTAAAATAGAGGCTCTAATATTAGTTCCAAAT-AATTTTAAACAATTATTTG-ATTCGA
1 TTAAACCTAAAATGGAGGCTCTAATATTA--ACCTAATCAATTTTAATCAATTA-TTGAATT-GA
*
69277 ATAATTAAAAT
62 ATAGTTAAAAT
69288 ACAACCTCTA
Statistics
Matches: 281, Mismatches: 56, Indels: 28
0.77 0.15 0.08
Matches are distributed among these distances:
137 4 0.01
138 132 0.47
139 138 0.49
140 7 0.02
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (135 bp):
TTAAACCTAAAATGGAGGCTCTAATATTAACCTAATCAATTTTAATCAATTATTGAATTGAATAG
TTAAAATGGAACCTCGAGCAAAAGAGAAACCAAATAAAAAATTCTCCTAATTTAAGGACTAAGTG
TGAAA
Found at i:69294 original size:139 final size:139
Alignment explanation
Indices: 69022--69363 Score: 358
Period size: 139 Copynumber: 2.5 Consensus size: 139
69012 AACTTAGAAT
* * * * * * * *
69022 AAAAGTGAGAACCAAATAAAAAAATT-CTCCT-AATTTAAGAAATAAGTGTGAAATTAAACCTAC
1 AAAAGCGAGGACCAAAT-TAAAAATTAC-CCTAAATTTAAGGACTAAATGTGAAATTAAGCCTAA
* * * * *
69085 AATGGAGCTTCTAATTATTAGCCTAATCAATTTTAACCAATTATTTGATTAGAATGATTAAAATG
64 AATAGAGCTTCTAATTATTAGCCAAATCAATTTTAAACAATTATTTGATTAGAATAATTAAAATA
*
69150 GAACCTCGAGC
129 CAACCTCGAGC
69161 AAAAGCGAGGACCAAATTAAAAATTACCCTAAATTTAAGGACTAAATGTGAAATTAAGCCTAAAA
1 AAAAGCGAGGACCAAATTAAAAATTACCCTAAATTTAAGGACTAAATGTGAAATTAAGCCTAAAA
*
69226 TAGAGGC-TCTAA-TATTAGTTCCAAAT-AATTTTAAACAATTATTTGATTCGAATAATTAAAAT
66 TAGA-GCTTCTAATTATTAG--CCAAATCAATTTTAAACAATTATTTGATTAGAATAATTAAAAT
* *
69288 ACAACCTCTAGT
128 ACAACCTCGAGC
* ** * *
69300 AAAAGTC-ATGACTGAATTAAGAATTTA-CCTAAATTTAAGGACTAAATTTGAAATT-AGACCTA
1 AAAAG-CGAGGACCAAATTAA-AAATTACCCTAAATTTAAGGACTAAATGTGAAATTAAG-CCTA
69362 AA
63 AA
69364 GTGAAGTGTC
Statistics
Matches: 173, Mismatches: 22, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
138 18 0.10
139 142 0.82
140 13 0.08
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.30
Consensus pattern (139 bp):
AAAAGCGAGGACCAAATTAAAAATTACCCTAAATTTAAGGACTAAATGTGAAATTAAGCCTAAAA
TAGAGCTTCTAATTATTAGCCAAATCAATTTTAAACAATTATTTGATTAGAATAATTAAAATACA
ACCTCGAGC
Found at i:71538 original size:19 final size:20
Alignment explanation
Indices: 71487--71527 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
71477 AATGCATATC
71487 CCAGATATTATAAGCATAGT
1 CCAGATATTATAAGCATAGT
71507 CCAGATATTATAAGCATAGT
1 CCAGATATTATAAGCATAGT
71527 C
1 C
71528 AATCATTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (20 bp):
CCAGATATTATAAGCATAGT
Found at i:73140 original size:139 final size:136
Alignment explanation
Indices: 72987--73377 Score: 376
Period size: 138 Copynumber: 2.8 Consensus size: 136
72977 CAAAAAGTGT
* * * *
72987 AGGCTCT-AATATTAATCCTAATCATTTTTAGTGAATTATTGAATTGAATAGTCAAAATGGAACC
1 AGGCTCTAAATATTAA-CCTAATCAATTTTAATCAATTATTGAATTGAATAGTTAAAATGGAACC
* * * * * * *
73051 TCGAGGATAAGCGAGCACCAAATCAAAAATTCTCCTAGATTAAAGGACTAAGTTTGGAATTAAAC
65 TCGAGCAAAAGTGAG-ACCAAAT-AAAAATTCTCCTAAATTTAAGGACTAAGTGTGAAATTAAAC
73116 CTAAAACGG
128 CTAAAACGG
* * * * * * ** *
73125 AGGCTCTAAACATTAACCTATTTAATTGTAATCAATTACTGACTCAAATAATTAAAATGGAACCT
1 AGGCTCTAAATATTAACCTAATCAATTTTAATCAATTATTGAATTGAATAGTTAAAATGGAACCT
** * * *
73190 CGAATAAAATTGAGAACCAAATAAAAATTTCTCCTAAATTTAAGAAATAAGTGTGAAATTAAACC
66 CGAGCAAAAGTGAG-ACCAAATAAAAA-TTCTCCTAAATTTAAGGACTAAGTGTGAAATTAAACC
*
73255 TAAAATGG
129 TAAAACGG
** * * *
73263 AGTTTCTAATTATTAGCCTAATCAATTTTAACCAATTATTTG-ATTCGAAT-GATTAAAATGGAA
1 AGGCTCTAAATATTAACCTAATCAATTTTAATCAATTA-TTGAATT-GAATAG-TTAAAATGGAA
73326 CCTCGAGCAAAAGTGATGACCAAATTAAAAATTAC-CCTAAATTTAAGGACTA
63 CCTCGAGCAAAAGTGA-GACCAAA-TAAAAATT-CTCCTAAATTTAAGGACTA
73378 TGTAACAACC
Statistics
Matches: 200, Mismatches: 45, Indels: 15
0.77 0.17 0.06
Matches are distributed among these distances:
137 5 0.03
138 128 0.64
139 59 0.29
140 8 0.04
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (136 bp):
AGGCTCTAAATATTAACCTAATCAATTTTAATCAATTATTGAATTGAATAGTTAAAATGGAACCT
CGAGCAAAAGTGAGACCAAATAAAAATTCTCCTAAATTTAAGGACTAAGTGTGAAATTAAACCTA
AAACGG
Found at i:74213 original size:29 final size:29
Alignment explanation
Indices: 74169--74268 Score: 148
Period size: 29 Copynumber: 3.5 Consensus size: 29
74159 CCCGACACGA
*
74169 TGACATTTTGGGAAATATTTTGAAATAGG
1 TGACATTCTGGGAAATATTTTGAAATAGG
*
74198 TGACATTCTGGAAAATATTTTGAAATAGG
1 TGACATTCTGGGAAATATTTTGAAATAGG
**
74227 TGACATTCTGGGAAATATTTTGAAA-AAA
1 TGACATTCTGGGAAATATTTTGAAATAGG
*
74255 TGACATTTTGGGAA
1 TGACATTCTGGGAA
74269 TTTTCGAATT
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
28 14 0.22
29 51 0.78
ACGTcount: A:0.37, C:0.06, G:0.22, T:0.35
Consensus pattern (29 bp):
TGACATTCTGGGAAATATTTTGAAATAGG
Found at i:80393 original size:711 final size:711
Alignment explanation
Indices: 77949--80511 Score: 4210
Period size: 711 Copynumber: 3.6 Consensus size: 711
77939 AGGGTATTAC
* *
77949 TCAACAATGATTCTCAATTGGATCCAAGCCTTGATCAAGCTTGAATATACAAGACAATTTAGTCT
1 TCAACAATGATTCTCAATCGGATCCAAGCCTTGATCAAGCTTGAATGTACAAGACAATTTAGTCT
* *
78014 TCACATTAGTAAGATTATCAGAAGTGTCAACTTTACTTACAATTGTATCACCATGGGCAATATCA
66 TCACATTAGTAAGGTTATCATAAGTGTCAACTTTACTTACAATTGTATCACCATGGGCAATATCA
* * *
78079 TAATTAACTTGATCCTCGTAATAAATGACAATTATATTTTTTCAGATGGTGTAAGATTTTCATGA
131 TAATTAACTTGATCCTCGTAATCAATGACAATTATATCTTTTCAGATAGTGTAAGATTTTCATGA
* * *
78144 AGACAAAAGACCTTGCAAGTATTCACGGTTCGAAAATCATGAAGTTAAGTGAGTTAGCAATGTTA
196 AGACAAAAGACCTTGCAAGTATTCAAGGTCCGAAAATAATGAAGTTAAGTGAGTTAGCAATGTTA
* *
78209 TTCATTTTTTAAGATGAATCCAATAGGGATAAAGTTTTAAAGAACAATATATGCTCGCTGGAAAA
261 ATCATTTTTTAAGATGAATCCAATAGGGATAAAGTTTTAAACAACAATATATGCTCGCTGGAAAA
* * *
78274 ATGGTTTGACGAGGTGGAGGTTTGGTCGGATGAGATTGTGTGTCGAAGCCACCGTACATGGTTGT
326 ATGGTTTGACAAGGTGGAGGTTTGGTCGGATGAGATTGAGTGTCGAAGCCGCCGTACATGGTTGT
* *
78339 CTTATAAAGGTATTATAGTTGGGAGAGAGAATCGGTTGGTACCAAGTTCGACATCCTGTGAAAAC
391 CTTGTAAAGGTATTATAGTTGGGAGAGAGAATCGGTTGGTACCAAGTTCGACATCCTGTGGAAAC
* * * * *
78404 ACTTAGGGGCTGTCTGCTGAGGGAAATTGAGATCAGGATAGATTCTCATTGAGGTGACATAGTCT
456 ACTTAGCGGCAGTCTGCTGAGGGAAATTGAGATCGGGCTAGATTCTCATTGAGGCGACATAGTCT
* * ** *
78469 GAGTCGAGTTTTTCCAGATCAATAAAACAGGTTAGTGCTAATGAAGATAGTCGTAGCAAGTCCCC
521 GAGTCGAGTTTTTCCAGATCTATAAAACATGTTAGTGCTAATGAAGATAGTCGTAGTTAGTCTCC
* *
78534 GTAAGTGATTGATTTCCAAAAATAGATTTTGGTTTATCAGTTCACAAGACAGAAAACCAAGTTAC
586 GTAAATGATTGATTTCCAAAAATAGATTTTGGTTTATCAGTTCACAAGACAGAAAAACAAGTTAC
*
78599 AGGTGTTGGGCCCTGTAGACTATAATCGGCAAATAACCGAAGCAAAAATTTATTCCGATGA
651 AGGGGTTGGGCCCTGTAGACTATAATCGGCAAATAACCGAAGCAAAAATTTATTCCGATGA
* * *
78660 TCAACAATGATTCTCAATCGGGTCCAAGCCTTGATCAAGCTTGAATGTATAAAACAATTTAGTCT
1 TCAACAATGATTCTCAATCGGATCCAAGCCTTGATCAAGCTTGAATGTACAAGACAATTTAGTCT
* *
78725 TCACATTAGTAACGTTATCATAAGTGTCAACTTTACTTACACTTGTATCACCATGGGCAATAT-A
66 TCACATTAGTAAGGTTATCATAAGTGTCAACTTTACTTACAATTGTATCACCATGGGCAATATCA
* * *
78789 -ATTTAACTTGATCCTAGTAATCAATGACAATTATAT-TGTTTCAGATAGTGTAAGATTTTCTTG
131 TAATTAACTTGATCCTCGTAATCAATGACAATTATATCT-TTTCAGATAGTGTAAGATTTTCATG
* *
78852 AAGACAAAAGACCTTGCAAGTGTTCAAGGTCCGAAAATAATGAAG-T---TGAGTTAGAAATGTT
195 AAGACAAAAGACCTTGCAAGTATTCAAGGTCCGAAAATAATGAAGTTAAGTGAGTTAGCAATGTT
* * * *
78913 AATCATTTTTTATGATGCATCCAAGAGGGATAAAGTTTTAAACAACAATATATGCTTGCTGGAAA
260 AATCATTTTTTAAGATGAATCCAATAGGGATAAAGTTTTAAACAACAATATATGCTCGCTGGAAA
* *
78978 AATGGTTTGACAAGGTGGAGGTTTGGTCGGATGAGATTGAGTGTCGAAGCCGCAGTATATGGTTG
325 AATGGTTTGACAAGGTGGAGGTTTGGTCGGATGAGATTGAGTGTCGAAGCCGCCGTACATGGTTG
*
79043 TCTTGTAAAGGTATTATAGTTGGGAGAGAGAATCGGTTGGTACCAAGTTCGATATCCTGTGGAAA
390 TCTTGTAAAGGTATTATAGTTGGGAGAGAGAATCGGTTGGTACCAAGTTCGACATCCTGTGGAAA
* **
79108 CACTTAGCGACACACTGCTGAGGGAAATTGAGATCGGGCTAGATTCTCATTGAGGCGACATAGTC
455 CACTTAGCGGCAGTCTGCTGAGGGAAATTGAGATCGGGCTAGATTCTCATTGAGGCGACATAGTC
* * * *
79173 TGAGTCGAGTTTTTCCAGATCTATAAAACATGTTATTACTAATGATGATAATCGTAGTTAGTCTC
520 TGAGTCGAGTTTTTCCAGATCTATAAAACATGTTAGTGCTAATGAAGATAGTCGTAGTTAGTCTC
* *
79238 CGTAAATGATTGATTTCTAAAAATAGA-TTTGGTTTATCAGTTCACAAGATAGAAAAACAAGTTA
585 CGTAAATGATTGATTTCCAAAAATAGATTTTGGTTTATCAGTTCACAAGACAGAAAAACAAGTTA
* *
79302 CAAGGGTTGGGCCCTGTAGACTATAATCGGCAAATAA-CGAAGCAAAAATTTATTTCGATGA
650 CAGGGGTTGGGCCCTGTAGACTATAATCGGCAAATAACCGAAGCAAAAATTTATTCCGATGA
* * *
79363 TCACCAATGATTCTCAATCGGGTCCAAGCCTTGACCAAGCTTGAATGTACAAGACAATTTAGTCT
1 TCAACAATGATTCTCAATCGGATCCAAGCCTTGATCAAGCTTGAATGTACAAGACAATTTAGTCT
*
79428 TCACATTAGTAAGGTTATCATAAGTGTCAACTTTACTTACAATTGTATCAACATGGGCAATATCA
66 TCACATTAGTAAGGTTATCATAAGTGTCAACTTTACTTACAATTGTATCACCATGGGCAATATCA
* *
79493 TAATTAACTTGATCCTCCTTATCAATGACAATTATATCTTTTCAGATAGTGTAAGATTTTCATGA
131 TAATTAACTTGATCCTCGTAATCAATGACAATTATATCTTTTCAGATAGTGTAAGATTTTCATGA
79558 AGACAAAAGACCTTGCAAGTATTCAAGGTCCGAAAATAATGAAGTTAAGTGAGTTAGCAATGTTA
196 AGACAAAAGACCTTGCAAGTATTCAAGGTCCGAAAATAATGAAGTTAAGTGAGTTAGCAATGTTA
* *
79623 ATCA-TATTTAATGATGAATCCAATAGGGATAAAGTTTTAAACAACAATATATGCTCGTTGGAAA
261 ATCATTTTTTAA-GATGAATCCAATAGGGATAAAGTTTTAAACAACAATATATGCTCGCTGGAAA
*
79687 AATGGTTTGACAAGGTGGAGGTTTGTTCGGATGAGATTGAGTGTCGAAGCCGCCGTACATGGTTG
325 AATGGTTTGACAAGGTGGAGGTTTGGTCGGATGAGATTGAGTGTCGAAGCCGCCGTACATGGTTG
79752 TCTTGTAAAGGTATTATAGTTGGGAGAGAGAATCGGTTGGTACCAAGTTCGACATCCTGTGGAAA
390 TCTTGTAAAGGTATTATAGTTGGGAGAGAGAATCGGTTGGTACCAAGTTCGACATCCTGTGGAAA
*
79817 CACTTAGCGGCAGTCTACTGAGGGAAATTGAGATCGGGCTAGATTCTCATTGAGGCGACATAGTC
455 CACTTAGCGGCAGTCTGCTGAGGGAAATTGAGATCGGGCTAGATTCTCATTGAGGCGACATAGTC
* *
79882 TGAGTCGAGTTTTTCCAAATCTATAAAACATGTTAGTGCTAATGACGATAGTCGTAGTTAGTCTC
520 TGAGTCGAGTTTTTCCAGATCTATAAAACATGTTAGTGCTAATGAAGATAGTCGTAGTTAGTCTC
79947 CGTAAATGATTGATTTCCAAAAATAGATTTTGGTTTATCAGTTCACAAGACAGAAAAACAAGTTA
585 CGTAAATGATTGATTTCCAAAAATAGATTTTGGTTTATCAGTTCACAAGACAGAAAAACAAGTTA
* * *
80012 CAGGGGTTGGGCCATGTATACTATAATCGGAAAATAACCGAAGCAAAAATTTATTCCGATGA
650 CAGGGGTTGGGCCCTGTAGACTATAATCGGCAAATAACCGAAGCAAAAATTTATTCCGATGA
* *
80074 TCAACAATGATTCTCAATCGGATCCAAGCCTTGATCAAGCTGGAATGTTCAAGACAATTTAGTCT
1 TCAACAATGATTCTCAATCGGATCCAAGCCTTGATCAAGCTTGAATGTACAAGACAATTTAGTCT
* *
80139 TCACATTAGCAAGGTTATCATAAGTGTTAACTTTACTTACAATTGTATCACCATGGGCAATATCA
66 TCACATTAGTAAGGTTATCATAAGTGTCAACTTTACTTACAATTGTATCACCATGGGCAATATCA
* *
80204 TAATTAACTTGATCCTCGTAGTCAATGACAATTATATCTTTTCAGATAGTGTAATATTTTCATGA
131 TAATTAACTTGATCCTCGTAATCAATGACAATTATATCTTTTCAGATAGTGTAAGATTTTCATGA
* *
80269 AGACAAAAGACCTTTCAAGTATTCAAGGTCCAAAAATAATGAAGTTAAGTGAGTTAGCAATGTTA
196 AGACAAAAGACCTTGCAAGTATTCAAGGTCCGAAAATAATGAAGTTAAGTGAGTTAGCAATGTTA
* * * ** *
80334 ATCATTTTTGAAGATGGATCCAATAGGGATAAAGTTTTAAAGAACAATATACACTCGTTGGAAAA
261 ATCATTTTTTAAGATGAATCCAATAGGGATAAAGTTTTAAACAACAATATATGCTCGCTGGAAAA
*
80399 ATGGTTTGACAAGGTGGAGGTTTGGTCGGATGAGATTGAGTGTCGAAGCCGCCGTACATTGTTGT
326 ATGGTTTGACAAGGTGGAGGTTTGGTCGGATGAGATTGAGTGTCGAAGCCGCCGTACATGGTTGT
* * * *
80464 CTTGTAAAGGTATTACAGTTGAGAGAGATAATCAGTTGGTACCAAGTT
391 CTTGTAAAGGTATTATAGTTGGGAGAGAGAATCGGTTGGTACCAAGTT
80512 GGTGAAGAGA
Statistics
Matches: 1717, Mismatches: 123, Indels: 24
0.92 0.07 0.01
Matches are distributed among these distances:
703 144 0.08
704 71 0.04
705 433 0.25
706 2 0.00
708 7 0.00
709 437 0.25
710 70 0.04
711 548 0.32
712 5 0.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (711 bp):
TCAACAATGATTCTCAATCGGATCCAAGCCTTGATCAAGCTTGAATGTACAAGACAATTTAGTCT
TCACATTAGTAAGGTTATCATAAGTGTCAACTTTACTTACAATTGTATCACCATGGGCAATATCA
TAATTAACTTGATCCTCGTAATCAATGACAATTATATCTTTTCAGATAGTGTAAGATTTTCATGA
AGACAAAAGACCTTGCAAGTATTCAAGGTCCGAAAATAATGAAGTTAAGTGAGTTAGCAATGTTA
ATCATTTTTTAAGATGAATCCAATAGGGATAAAGTTTTAAACAACAATATATGCTCGCTGGAAAA
ATGGTTTGACAAGGTGGAGGTTTGGTCGGATGAGATTGAGTGTCGAAGCCGCCGTACATGGTTGT
CTTGTAAAGGTATTATAGTTGGGAGAGAGAATCGGTTGGTACCAAGTTCGACATCCTGTGGAAAC
ACTTAGCGGCAGTCTGCTGAGGGAAATTGAGATCGGGCTAGATTCTCATTGAGGCGACATAGTCT
GAGTCGAGTTTTTCCAGATCTATAAAACATGTTAGTGCTAATGAAGATAGTCGTAGTTAGTCTCC
GTAAATGATTGATTTCCAAAAATAGATTTTGGTTTATCAGTTCACAAGACAGAAAAACAAGTTAC
AGGGGTTGGGCCCTGTAGACTATAATCGGCAAATAACCGAAGCAAAAATTTATTCCGATGA
Found at i:83228 original size:36 final size:36
Alignment explanation
Indices: 83181--83253 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
83171 AGTTCTGGAA
83181 TTAAGTGATAAAAGAATCAACCATGGATATGTAGAT
1 TTAAGTGATAAAAGAATCAACCATGGATATGTAGAT
*
83217 TTAAGTGATAAAAGAATCAGCCATGGATATGTAGAT
1 TTAAGTGATAAAAGAATCAACCATGGATATGTAGAT
83253 T
1 T
83254 ATAATTTATC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (36 bp):
TTAAGTGATAAAAGAATCAACCATGGATATGTAGAT
Found at i:85029 original size:12 final size:12
Alignment explanation
Indices: 85009--85078 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
84999 GATACATGAC
*
85009 CTGAATTCTGTT
1 CTGATTTCTGTT
*
85021 CTGATTTCTGAT
1 CTGATTTCTGTT
*
85033 ATGGA-TTCTGTT
1 CT-GATTTCTGTT
* *
85045 TTGATATCTGTT
1 CTGATTTCTGTT
*
85057 CTGAATTCTGTT
1 CTGATTTCTGTT
*
85069 TTGATTTCTG
1 CTGATTTCTG
85079 ATATCTCCGT
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
11 2 0.04
12 41 0.91
13 2 0.04
ACGTcount: A:0.16, C:0.13, G:0.19, T:0.53
Consensus pattern (12 bp):
CTGATTTCTGTT
Found at i:85040 original size:24 final size:24
Alignment explanation
Indices: 85010--85082 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
85000 ATACATGACC
*
85010 TGAATTCTGTTCTGATTTCTGATA
1 TGAATTCTGTTTTGATTTCTGATA
* * * *
85034 TGGATTCTGTTTTGATATCTGTTC
1 TGAATTCTGTTTTGATTTCTGATA
85058 TGAATTCTGTTTTGATTTCTGATA
1 TGAATTCTGTTTTGATTTCTGATA
85082 T
1 T
85083 CTCCGTTTAC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.18, C:0.11, G:0.18, T:0.53
Consensus pattern (24 bp):
TGAATTCTGTTTTGATTTCTGATA
Found at i:85043 original size:48 final size:48
Alignment explanation
Indices: 84972--85082 Score: 136
Period size: 48 Copynumber: 2.3 Consensus size: 48
84962 AAATATTTTA
84972 TCTGATTTCTGACT-TAAATTCTGTTATGATA-CATGACCTGAATTCTGT
1 TCTGATTTCTGA-TATAAATTCTGTTATGATATC-TGACCTGAATTCTGT
** * **
85020 TCTGATTTCTGATATGGATTCTGTTTTGATATCTGTTCTGAATTCTGT
1 TCTGATTTCTGATATAAATTCTGTTATGATATCTGACCTGAATTCTGT
*
85068 TTTGATTTCTGATAT
1 TCTGATTTCTGATAT
85083 CTCCGTTTAC
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 1 0.02
48 53 0.96
49 1 0.02
ACGTcount: A:0.21, C:0.14, G:0.16, T:0.50
Consensus pattern (48 bp):
TCTGATTTCTGATATAAATTCTGTTATGATATCTGACCTGAATTCTGT
Found at i:85058 original size:17 final size:19
Alignment explanation
Indices: 85015--85066 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 19
85005 TGACCTGAAT
85015 TCTGTTCTGATTTCTGATA
1 TCTGTTCTGATTTCTGATA
*
85034 T-GGATTCTG-TTT-TGATA
1 TCTG-TTCTGATTTCTGATA
*
85051 TCTGTTCTGAATTCTG
1 TCTGTTCTGATTTCTG
85067 TTTTGATTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 8
0.70 0.08 0.22
Matches are distributed among these distances:
17 11 0.42
18 7 0.27
19 8 0.31
ACGTcount: A:0.15, C:0.13, G:0.19, T:0.52
Consensus pattern (19 bp):
TCTGTTCTGATTTCTGATA
Found at i:85245 original size:2 final size:2
Alignment explanation
Indices: 85238--85288 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
85228 AGGATGGGGG
85238 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
85280 TA TA TA TA T
1 TA TA TA TA T
85289 GTTTAAAAGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:86669 original size:138 final size:138
Alignment explanation
Indices: 86527--86913 Score: 347
Period size: 138 Copynumber: 2.8 Consensus size: 138
86517 CAAAAAGTGT
* * * *
86527 AGGCTCTAATATTAATCCTAATCATTTTTAGTGAATTATTGAATTGAATAGTCAAAATGGAACCT
1 AGGCTCTAATATTAATCCTAATCAATTTTAATCAATTATTGAATTGAATAGTTAAAATGGAACCT
* * * * * * *
86592 CGAGGATAAGCGAGCACCAAATCAAAAA-TTCTCCTAGATTAAAGGACTAAGTTTGGAATTAAAC
66 CGAGGAAAAGCGAGAACCAAAT-AAAAATTTCTCCTAAATTAAAGAAATAAGTGTGAAATTAAAC
86656 CTAAAACGG
130 CTAAAACGG
* * * * * ** *
86665 AGGCTCTAAATATTAA-CCTATTTAATTGTAATCAATTACTGACTCAAATAATTAAAATGGAACC
1 AGGCTCT-AATATTAATCCTAATCAATTTTAATCAATTATTGAATTGAATAGTTAAAATGGAACC
** ** *
86729 TCGAATAAAATTGAGAACCAAATAAAAATTTCTCCTAAATTTAAGAAATAAGTGTGAAATTAAAC
65 TCGAGGAAAAGCGAGAACCAAATAAAAATTTCTCCTAAATTAAAGAAATAAGTGTGAAATTAAAC
*
86794 CTAAAATGG
130 CTAAAACGG
** * *
86803 AGTTTCTAATTATTAGT-CTAATCAATTTTAACCAATTATTTG-ATTCGAAT-GATTAAAATGGA
1 AGGCTCTAA-TATTAATCCTAATCAATTTTAATCAATTA-TTGAATT-GAATAG-TTAAAATGGA
* * * * *
86865 ACCTCGAGCAAAAGTGATG-ATCAAATTAAAATTAC-CCTAAATTTAAAGA
62 ACCTCGAGGAAAAGCGA-GAACCAAATAAAAATTTCTCCTAAA-TTAAAGA
86914 CTATGTAACA
Statistics
Matches: 196, Mismatches: 44, Indels: 17
0.76 0.17 0.07
Matches are distributed among these distances:
137 7 0.04
138 132 0.67
139 56 0.29
140 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.30
Consensus pattern (138 bp):
AGGCTCTAATATTAATCCTAATCAATTTTAATCAATTATTGAATTGAATAGTTAAAATGGAACCT
CGAGGAAAAGCGAGAACCAAATAAAAATTTCTCCTAAATTAAAGAAATAAGTGTGAAATTAAACC
TAAAACGG
Found at i:87699 original size:22 final size:22
Alignment explanation
Indices: 87674--87728 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
87664 GACCGGTCTA
*
87674 ACCCGACCCGACCCGTAGACCG
1 ACCCGACCCGACCCATAGACCG
*
87696 ACCCGACCCGACCCATTGACCG
1 ACCCGACCCGACCCATAGACCG
87718 ACCCGACCCGA
1 ACCCGACCCGA
87729 TGACATTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.24, C:0.51, G:0.20, T:0.05
Consensus pattern (22 bp):
ACCCGACCCGACCCATAGACCG
Found at i:87822 original size:27 final size:29
Alignment explanation
Indices: 87729--87835 Score: 182
Period size: 29 Copynumber: 3.8 Consensus size: 29
87719 CCCGACCCGA
*
87729 TGACATTTTGGGAAATATTTTGAAATAGG
1 TGACATTCTGGGAAATATTTTGAAATAGG
87758 TGACATTCTGGGAAATATTTTGAAATAGG
1 TGACATTCTGGGAAATATTTTGAAATAGG
87787 TGACATTCTGGGAAATATTTT-AAA-AGG
1 TGACATTCTGGGAAATATTTTGAAATAGG
*
87814 TGACATTCTAGGAAATATTTTG
1 TGACATTCTGGGAAATATTTTG
87836 GAAAAATGAC
Statistics
Matches: 75, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
27 23 0.31
28 3 0.04
29 49 0.65
ACGTcount: A:0.35, C:0.07, G:0.22, T:0.36
Consensus pattern (29 bp):
TGACATTCTGGGAAATATTTTGAAATAGG
Found at i:88841 original size:63 final size:62
Alignment explanation
Indices: 88727--88849 Score: 151
Period size: 63 Copynumber: 2.0 Consensus size: 62
88717 CTAATGTCAC
* ** *
88727 TCTTAGGTAGGCTCTGCGGCCCGAGATCATTCTCGGGTAGGCCCTACGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCCACGGCCCGAAATCATTCTCGGGTAGGCCCTACGGCCCTAAGATGTGT
* *
88789 TCTTAGGTAGGCCCCACGGCCCCGAAATC-TATCTTGGGTAGGCTCT-CAGGCCCTAAGATGT
1 TCTTAGGTAGGCCCCACGG-CCCGAAATCAT-TCTCGGGTAGGCCCTAC-GGCCCTAAGATGT
88850 TCCCTTAGGG
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
62 18 0.35
63 34 0.65
ACGTcount: A:0.18, C:0.28, G:0.28, T:0.25
Consensus pattern (62 bp):
TCTTAGGTAGGCCCCACGGCCCGAAATCATTCTCGGGTAGGCCCTACGGCCCTAAGATGTGT
Found at i:88919 original size:26 final size:26
Alignment explanation
Indices: 88866--88919 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
88856 AGGGTAACTC
*
88866 TTTTATGAGATTTACTGCAGTATAAT
1 TTTTATGAGATTTACTGCACTATAAT
* *
88892 TTTTATGAGATTTACTGGACTATGAT
1 TTTTATGAGATTTACTGCACTATAAT
88918 TT
1 TT
88920 GTTTAGTGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.07, G:0.17, T:0.48
Consensus pattern (26 bp):
TTTTATGAGATTTACTGCACTATAAT
Done.