Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 160 of 182
Found at i:49237241 original size:25 final size:25
Alignment explanation
Indices: 49237213--49237289 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
49237203 GTAAATGGTA
49237213 ATTGGGTTTGGGTAGACTTTAGTTT
1 ATTGGGTTTGGGTAGACTTTAGTTT
* * *
49237238 ATTGGG-TT-GGTA-A--AT-GGTA
1 ATTGGGTTTGGGTAGACTTTAGTTT
*
49237257 ATTGGGTTTGGGTAGACTTTAATTT
1 ATTGGGTTTGGGTAGACTTTAGTTT
49237282 ATTGGGTT
1 ATTGGGTT
49237290 GGTAAATGGT
Statistics
Matches: 39, Mismatches: 7, Indels: 12
0.67 0.12 0.21
Matches are distributed among these distances:
19 8 0.21
20 3 0.08
21 4 0.10
22 2 0.05
23 4 0.10
24 3 0.08
25 15 0.38
ACGTcount: A:0.19, C:0.03, G:0.32, T:0.45
Consensus pattern (25 bp):
ATTGGGTTTGGGTAGACTTTAGTTT
Found at i:49237247 original size:44 final size:44
Alignment explanation
Indices: 49237180--49237313 Score: 243
Period size: 44 Copynumber: 3.0 Consensus size: 44
49237170 ACTTTAGTTT
49237180 TAGACTTTAGTTTTATTGGGTTGGTAAATGGTAATTGGGTTTGGG
1 TAGACTTTAG-TTTATTGGGTTGGTAAATGGTAATTGGGTTTGGG
49237225 TAGACTTTAGTTTATTGGGTTGGTAAATGGTAATTGGGTTTGGG
1 TAGACTTTAGTTTATTGGGTTGGTAAATGGTAATTGGGTTTGGG
*
49237269 TAGACTTTAATTTATTGGGTTGGTAAATGGTAATTGGG-TTGGG
1 TAGACTTTAGTTTATTGGGTTGGTAAATGGTAATTGGGTTTGGG
49237312 TA
1 TA
49237314 ATTGGGTTTA
Statistics
Matches: 88, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
43 7 0.08
44 71 0.81
45 10 0.11
ACGTcount: A:0.22, C:0.02, G:0.33, T:0.43
Consensus pattern (44 bp):
TAGACTTTAGTTTATTGGGTTGGTAAATGGTAATTGGGTTTGGG
Found at i:49237315 original size:13 final size:13
Alignment explanation
Indices: 49237297--49237321 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49237287 GTTGGTAAAT
49237297 GGTAATTGGGTTG
1 GGTAATTGGGTTG
49237310 GGTAATTGGGTT
1 GGTAATTGGGTT
49237322 TATTAATTTT
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:0.16, C:0.00, G:0.44, T:0.40
Consensus pattern (13 bp):
GGTAATTGGGTTG
Found at i:49238928 original size:25 final size:25
Alignment explanation
Indices: 49238894--49238964 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
49238884 TATGCACATT
*
49238894 TATGCTCACACGAGCTGTGTATCAG
1 TATGCTCACACGAGCTGTGAATCAG
* *
49238919 TATGCTCACACGAGCTATAAATCAG
1 TATGCTCACACGAGCTGTGAATCAG
*
49238944 TATGCTCACATGAGCTGTGAA
1 TATGCTCACACGAGCTGTGAA
49238965 AATAGGCCTG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.27
Consensus pattern (25 bp):
TATGCTCACACGAGCTGTGAATCAG
Found at i:49246589 original size:27 final size:25
Alignment explanation
Indices: 49246531--49246594 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
49246521 TCCTTTATAT
* * *
49246531 GTATGCTCACACGAGCTGTGTATCG
1 GTATGCTCACACAAGCTGTGAATAG
49246556 GTATGCTCACACAAGCTGTGAAAATAG
1 GTATGCTCACACAAGCTGTG--AATAG
*
49246583 GTCTGCTCACAC
1 GTATGCTCACAC
49246595 GAGTTATGGG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 19 0.58
27 14 0.42
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (25 bp):
GTATGCTCACACAAGCTGTGAATAG
Found at i:49256570 original size:75 final size:75
Alignment explanation
Indices: 49256485--49256635 Score: 266
Period size: 75 Copynumber: 2.0 Consensus size: 75
49256475 ATCTACTTGA
*
49256485 ACAAAAAACTTATAGCTCTTAGACTGATGGGTGAAGAATACTGGAATTTGATGTTGGATATCACC
1 ACAAAAAACTTATAGCTCTTAGACTGATGGGTGAAGAATACTAGAATTTGATGTTGGATATCACC
*
49256550 AGGATGATAT
66 AGAATGATAT
*
49256560 ACAAAAAACTTATAGCTCTTAGACTGATGGTTGAAGAATACTAGAATTTGATGTTGGATATCACC
1 ACAAAAAACTTATAGCTCTTAGACTGATGGGTGAAGAATACTAGAATTTGATGTTGGATATCACC
*
49256625 ATAATGATAT
66 AGAATGATAT
49256635 A
1 A
49256636 AATGAAGAAT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (75 bp):
ACAAAAAACTTATAGCTCTTAGACTGATGGGTGAAGAATACTAGAATTTGATGTTGGATATCACC
AGAATGATAT
Found at i:49258692 original size:18 final size:18
Alignment explanation
Indices: 49258669--49258704 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
49258659 CCACCCCAAT
49258669 CTGATTTTATCACTAAAA
1 CTGATTTTATCACTAAAA
49258687 CTGATTTTATCACTAAAA
1 CTGATTTTATCACTAAAA
49258705 GAATTAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.06, T:0.39
Consensus pattern (18 bp):
CTGATTTTATCACTAAAA
Found at i:49259507 original size:31 final size:31
Alignment explanation
Indices: 49259465--49259526 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
49259455 TTAAATAGGA
* *
49259465 TAGTGTGATAGTGGAAAGAAGATTTCTTATT
1 TAGTGTAATAGTAGAAAGAAGATTTCTTATT
*
49259496 TAGTGTAATAGTAGAGAGAAGATTTCTTATT
1 TAGTGTAATAGTAGAAAGAAGATTTCTTATT
49259527 CAGCTTCTCC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.34, C:0.03, G:0.24, T:0.39
Consensus pattern (31 bp):
TAGTGTAATAGTAGAAAGAAGATTTCTTATT
Found at i:49261520 original size:44 final size:44
Alignment explanation
Indices: 49261457--49261559 Score: 188
Period size: 44 Copynumber: 2.3 Consensus size: 44
49261447 AGTATTTCTA
* *
49261457 ATCAGTGACAAGAGATAAGTGGTAGCTTTAGCTGCACTTATCTG
1 ATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTG
49261501 ATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTG
1 ATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTG
49261545 ATCAGTGACAAGTGA
1 ATCAGTGACAAGTGA
49261560 CAAGCGATAA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (44 bp):
ATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTG
Found at i:49261603 original size:57 final size:58
Alignment explanation
Indices: 49261510--49261636 Score: 229
Period size: 57 Copynumber: 2.2 Consensus size: 58
49261500 GATCAGTGAC
49261510 AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGCGAT
1 AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGCGAT
* *
49261568 AAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGTGACAAGTGATAAGTGAT
1 AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGCGAT
49261625 AAGTGATAAGTG
1 AAGTGATAAGTG
49261637 ATAAGTGATA
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
57 50 0.75
58 17 0.25
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (58 bp):
AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGCGAT
Found at i:49261621 original size:7 final size:7
Alignment explanation
Indices: 49261600--49261659 Score: 93
Period size: 7 Copynumber: 8.6 Consensus size: 7
49261590 TACACTTATC
*
49261600 TGATCAG
1 TGATAAG
*
49261607 TGACAAG
1 TGATAAG
49261614 TGATAAG
1 TGATAAG
49261621 TGATAAG
1 TGATAAG
49261628 TGATAAG
1 TGATAAG
49261635 TGATAAG
1 TGATAAG
*
49261642 TGATAAA
1 TGATAAG
49261649 TGATAAG
1 TGATAAG
49261656 TGAT
1 TGAT
49261660 TCCATGTAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 48 1.00
ACGTcount: A:0.42, C:0.03, G:0.27, T:0.28
Consensus pattern (7 bp):
TGATAAG
Found at i:49264275 original size:5 final size:5
Alignment explanation
Indices: 49264265--49264303 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
49264255 CTTTTGTCAT
49264265 TATTA TATTA TATTA TATTA TTATTA TATCTA TA-TA TAT
1 TATTA TATTA TATTA TATTA -TATTA TAT-TA TATTA TAT
49264304 ACACGCATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
4 4 0.13
5 18 0.58
6 9 0.29
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:49264289 original size:21 final size:23
Alignment explanation
Indices: 49264263--49264304 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
49264253 CCCTTTTGTC
49264263 ATTATTATAT-TATAT-TATATT
1 ATTATTATATCTATATATATATT
49264284 ATTATTATATCTATATATATA
1 ATTATTATATCTATATATATA
49264305 CACGCATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 10 0.53
22 5 0.26
23 4 0.21
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (23 bp):
ATTATTATATCTATATATATATT
Found at i:49270524 original size:11 final size:11
Alignment explanation
Indices: 49270508--49270562 Score: 65
Period size: 11 Copynumber: 4.8 Consensus size: 11
49270498 TAGATTAAAT
49270508 CAAAAAAAAAA
1 CAAAAAAAAAA
49270519 CAAAAACAAAAAA
1 C-AAAA-AAAAAA
*
49270532 CAACAAAAAAA
1 CAAAAAAAAAA
*
49270543 CAAAAAAAGAA
1 CAAAAAAAAAA
*
49270554 GAAAAAAAA
1 CAAAAAAAA
49270563 CCCCGCTAGG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
11 23 0.62
12 7 0.19
13 7 0.19
ACGTcount: A:0.85, C:0.11, G:0.04, T:0.00
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:49270531 original size:8 final size:8
Alignment explanation
Indices: 49270512--49270550 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
49270502 TTAAATCAAA
49270512 AAAAAAAC
1 AAAAAAAC
49270520 AAAAACAA-
1 AAAAA-AAC
*
49270528 AAAACAAC
1 AAAAAAAC
49270536 AAAAAAAC
1 AAAAAAAC
49270544 AAAAAAA
1 AAAAAAA
49270551 GAAGAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 2 0.07
8 23 0.85
9 2 0.07
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:49270536 original size:10 final size:9
Alignment explanation
Indices: 49270508--49270550 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
49270498 TAGATTAAAT
49270508 CAAAAAAAA
1 CAAAAAAAA
*
49270517 -AACAAAAA
1 CAAAAAAAA
49270525 CAAAAAACAA
1 CAAAAAA-AA
49270535 C-AAAAAAA
1 CAAAAAAAA
49270543 CAAAAAAA
1 CAAAAAAA
49270551 GAAGAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
8 10 0.34
9 16 0.55
10 3 0.10
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (9 bp):
CAAAAAAAA
Found at i:49270541 original size:18 final size:17
Alignment explanation
Indices: 49270508--49270550 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
49270498 TAGATTAAAT
49270508 CAAAAAAAAAACAAAAA
1 CAAAAAAAAAACAAAAA
49270525 CAAAAAACAACAA-AAAAA
1 CAAAAAA-AA-AACAAAAA
49270543 CAAAAAAA
1 CAAAAAAA
49270551 GAAGAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.33
18 14 0.58
19 2 0.08
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (17 bp):
CAAAAAAAAAACAAAAA
Found at i:49270558 original size:18 final size:16
Alignment explanation
Indices: 49270509--49270562 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
49270499 AGATTAAATC
49270509 AAAAAAAAAACAAAAA
1 AAAAAAAAAACAAAAA
* *
49270525 CAAAAAACAACAAAAA
1 AAAAAAAAAACAAAAA
* *
49270541 AACAAAAAAAGAAGAAA
1 AAAAAAAAAACAA-AAA
49270558 AAAAA
1 AAAAA
49270563 CCCCGCTAGG
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 23 0.77
17 7 0.23
ACGTcount: A:0.87, C:0.09, G:0.04, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAACAAAAA
Found at i:49271099 original size:15 final size:15
Alignment explanation
Indices: 49271054--49271100 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
49271044 GAGATGATGT
*
49271054 GAAAAAATGAAAAT-
1 GAAAAAATAAAAATG
*
49271068 GAAAAATAAAAAAATG
1 GAAAAA-ATAAAAATG
49271084 GAAAAAATAAAAATG
1 GAAAAAATAAAAATG
49271099 GA
1 GA
49271101 GAGGCTAAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 6 0.21
15 16 0.57
16 6 0.21
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (15 bp):
GAAAAAATAAAAATG
Found at i:49272516 original size:50 final size:50
Alignment explanation
Indices: 49272459--49272931 Score: 293
Period size: 50 Copynumber: 9.5 Consensus size: 50
49272449 CAGCGGAGCG
* *
49272459 GATTGAAGCCACAACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAAAA
1 GATTGAAGCCACAACGGCGGATCTGGTTTCCCCGACAGTGCAATTAAAAA
* *** * * * * * **
49272509 GATTGAAGCCACAACAGCGGATCTTACTTCCCGGGCGGTGCAGTGGAGCAA
1 GATTGAAGCCACAACGGCGGATCTGGTTTCCCCGACAGTGCAAT-TAAAAA
** **
49272560 -ATTGAAATCACAACGGCAAATCTGGTTTCCCCGACAGTGCAATTAAAAA
1 GATTGAAGCCACAACGGCGGATCTGGTTTCCCCGACAGTGCAATTAAAAA
* *** * * * * ** **
49272609 GATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCA
1 GATTGAAGCCACAACGGCGGATCTGGTTTCCCCGACAGTGCAATTAAAAA
* ** * *
49272659 GATTGAAGTCACAACGGTAGATCTGGTTTCCCTGACAATGCAATT-AAAA
1 GATTGAAGCCACAACGGCGGATCTGGTTTCCCCGACAGTGCAATTAAAAA
**** * * * *** *
49272708 GATTGAAGCCACAACGGCGGATCTTACCTCCCTGGCAGTACAGCGAAACA
1 GATTGAAGCCACAACGGCGGATCTGGTTTCCCCGACAGTGCAATTAAAAA
* * * * * **
49272758 GATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATTTCGATTTTAAA
1 GATTGAAGCCACAACGGCGGATCTGGTTTCCCCGACAGTGCAATTAAAAA
* *** * * * * ** *
49272808 GATTGAAGCCACAACGGTGGATCTTACTTCCCTGGCGGTGCAGTGGAACA
1 GATTGAAGCCACAACGGCGGATCTGGTTTCCCCGACAGTGCAATTAAAAA
* * ** * *
49272858 GATTGAAGCTACGACGGTTGATCTGGTTTCCCCGACATTACAATTAAAAA
1 GATTGAAGCCACAACGGCGGATCTGGTTTCCCCGACAGTGCAATTAAAAA
*
49272908 TATTGAAGCCACAACGGCGGATCT
1 GATTGAAGCCACAACGGCGGATCT
49272932 TACTTCCTTA
Statistics
Matches: 298, Mismatches: 122, Indels: 6
0.70 0.29 0.01
Matches are distributed among these distances:
49 37 0.12
50 258 0.87
51 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.22
Consensus pattern (50 bp):
GATTGAAGCCACAACGGCGGATCTGGTTTCCCCGACAGTGCAATTAAAAA
Found at i:49272632 original size:100 final size:99
Alignment explanation
Indices: 49272459--49272965 Score: 638
Period size: 100 Copynumber: 5.1 Consensus size: 99
49272449 CAGCGGAGCG
*
49272459 GATTGAAGCCACAACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAAAAGATTGAAGCCACAAC
1 GATTGAAG-CACAACGGCAGATCTGGTTTCCCCGACAGTGCAATTAAAAAGATTGAAGCCACAAC
* * *
49272524 AGCGGATCTTACTTCCCGGGCGGTGCAGTGGAGCA
65 GGCGGATCTTACTTCCCTGGCGGTGCAGTGGAACA
* * *
49272559 AATTGAAATCACAACGGCAAATCTGGTTTCCCCGACAGTGCAATTAAAAAGATTGAAGCCACAAC
1 GATTG-AAGCACAACGGCAGATCTGGTTTCCCCGACAGTGCAATTAAAAAGATTGAAGCCACAAC
* *
49272624 GGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCA
65 GGCGGATCTTACTTCCCTGGCGGTGCAGTGGAACA
* * *
49272659 GATTGAAGTCACAACGGTAGATCTGGTTTCCCTGACAATGCAATT-AAAAGATTGAAGCCACAAC
1 GATTGAAG-CACAACGGCAGATCTGGTTTCCCCGACAGTGCAATTAAAAAGATTGAAGCCACAAC
* * * * *
49272723 GGCGGATCTTACCTCCCTGGCAGTACAGCGAAACA
65 GGCGGATCTTACTTCCCTGGCGGTGCAGTGGAACA
* * * * * **
49272758 GATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATTTCGATTTTAAAGATTGAAGCCACAAC
1 GATTGAAGC-ACAACGGCAGATCTGGTTTCCCCGACAGTGCAATTAAAAAGATTGAAGCCACAAC
*
49272823 GGTGGATCTTACTTCCCTGGCGGTGCAGTGGAACA
65 GGCGGATCTTACTTCCCTGGCGGTGCAGTGGAACA
* ** * * *
49272858 GATTGAAGCTACGACGGTTGATCTGGTTTCCCCGACATTACAATTAAAAATATTGAAGCCACAAC
1 GATTGAAGC-ACAACGGCAGATCTGGTTTCCCCGACAGTGCAATTAAAAAGATTGAAGCCACAAC
* * * *
49272923 GGCGGATCTTACTTCCTTAGCGGTGTAGTGGAATA
65 GGCGGATCTTACTTCCCTGGCGGTGCAGTGGAACA
*
49272958 TATTGAAG
1 GATTGAAG
49272966 TCACGGCGAT
Statistics
Matches: 356, Mismatches: 47, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
98 1 0.00
99 85 0.24
100 268 0.75
101 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.23
Consensus pattern (99 bp):
GATTGAAGCACAACGGCAGATCTGGTTTCCCCGACAGTGCAATTAAAAAGATTGAAGCCACAACG
GCGGATCTTACTTCCCTGGCGGTGCAGTGGAACA
Found at i:49272811 original size:199 final size:199
Alignment explanation
Indices: 49272453--49272934 Score: 635
Period size: 199 Copynumber: 2.4 Consensus size: 199
49272443 TCGCCTCAGC
* * **
49272453 GGAGCGGATTGAAGCCACAACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAAAAGATTGAAGC
1 GGAGCAGATTGAAG-CACAACGGTAGATCTGGTTTCCCCGACAATGCAATTAAAAAGATTGAAGC
* * * * * * *
49272518 CACAACAGCGGATCTTACTTCCCGGGCGGTGCAGTGGAGCAAATTGAAATCACAACGGCAAATCT
65 CACAACGGCGGATCTTACCTCCCGGGCAGTACAGCGAAACAAATTGAAATCACAACGGCAAATCT
49272583 GGTTTCCCCGACAGTGCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGT
130 GGTTTCCCCGACAGTGCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGT
49272648 GCAGT
195 GCAGT
*
49272653 GGAGCAGATTGAAGTCACAACGGTAGATCTGGTTTCCCTGACAATGCAATT-AAAAGATTGAAGC
1 GGAGCAGATTGAAG-CACAACGGTAGATCTGGTTTCCCCGACAATGCAATTAAAAAGATTGAAGC
* * * * **
49272717 CACAACGGCGGATCTTACCTCCCTGGCAGTACAGCGAAACAGATTG-AAGCTACGACGGCGGATC
65 CACAACGGCGGATCTTACCTCCCGGGCAGTACAGCGAAACAAATTGAAATC-ACAACGGCAAATC
* * * ** **
49272781 TGGTTTCCCCGACATTTCGATTTTAAAGATTGAAGCCACAACGGTGGATCTTACTTCCCTGGCGG
129 TGGTTTCCCCGACAGTGCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGG
49272846 TGCAGT
194 TGCAGT
* * * * * *
49272852 GGAACAGATTGAAGCTACGACGGTTGATCTGGTTTCCCCGACATTACAATTAAAAATATTGAAGC
1 GGAGCAGATTGAAGC-ACAACGGTAGATCTGGTTTCCCCGACAATGCAATTAAAAAGATTGAAGC
49272917 CACAACGGCGGATCTTAC
65 CACAACGGCGGATCTTAC
49272935 TTCCTTAGCG
Statistics
Matches: 246, Mismatches: 33, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
198 4 0.02
199 167 0.68
200 75 0.30
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.22
Consensus pattern (199 bp):
GGAGCAGATTGAAGCACAACGGTAGATCTGGTTTCCCCGACAATGCAATTAAAAAGATTGAAGCC
ACAACGGCGGATCTTACCTCCCGGGCAGTACAGCGAAACAAATTGAAATCACAACGGCAAATCTG
GTTTCCCCGACAGTGCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTG
CAGT
Found at i:49273014 original size:299 final size:299
Alignment explanation
Indices: 49272459--49273014 Score: 731
Period size: 299 Copynumber: 1.9 Consensus size: 299
49272449 CAGCGGAGCG
49272459 GATTGAAGCCACAACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAAAAGATTGAAGCCACAAC
1 GATTGAAGCCACAACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAAAAGATTGAAGCCACAAC
*
49272524 AGCGGATCTTACTTCCCGGGCGGTGCAGTGGAGCAAATTGAAATCACAACGGCAAATCTGGTTTC
66 AGCGGATCTTACTTCCCGGGCGGTGCAGTGGAACAAATTGAAATCACAACGGCAAATCTGGTTTC
* *
49272589 CCCGACAGTGCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTG
131 CCCGACAGTACAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTAGCGGTGCAGTG
* * * *
49272654 GAGCAGATTGAAGTCACAACGGTAGATCTGGTTTCCCTGACAATGCAATTAAAAGATTGAAGCCA
196 GAACAGATTGAAGTCACAACGATAGATCTGGTTTCCCCGACAATGCAATTAAAAAATTGAAGCCA
49272719 CAACGGCGGATCTTACCTCCCTGGCAGTACAGCGAAACA
261 CAACGGCGGATCTTACCTCCCTGGCAGTACAGCGAAACA
* * * *** * **
49272758 GATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATTTCGATTTTAAAGATTGAAGCCACAAC
1 GATTGAAGCCACAACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAAAAGATTGAAGCCACAAC
* * * * * * ***
49272823 GGTGGATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTG-AAGCTACGACGGTTGATCTGGTTT
66 AGCGGATCTTACTTCCCGGGCGGTGCAGTGGAACAAATTGAAATC-ACAACGGCAAATCTGGTTT
* * * * *
49272887 CCCCGACATTACAATTAAAAATATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCGGTGTAGT
130 CCCCGACAGTACAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTAGCGGTGCAGT
* * ** * * *
49272952 GGAATATATTGAAGTCACGGCGAT-GAATCTTG-TTCCCCGACATTGCAGTTAAACAAATTGAAG
195 GGAACAGATTGAAGTCACAACGATAG-ATCTGGTTTCCCCGACAATGCAATTAAA-AAATTGAAG
49273015 AAATCAATCC
Statistics
Matches: 217, Mismatches: 37, Indels: 6
0.83 0.14 0.02
Matches are distributed among these distances:
298 22 0.10
299 195 0.90
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.23
Consensus pattern (299 bp):
GATTGAAGCCACAACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAAAAGATTGAAGCCACAAC
AGCGGATCTTACTTCCCGGGCGGTGCAGTGGAACAAATTGAAATCACAACGGCAAATCTGGTTTC
CCCGACAGTACAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTAGCGGTGCAGTG
GAACAGATTGAAGTCACAACGATAGATCTGGTTTCCCCGACAATGCAATTAAAAAATTGAAGCCA
CAACGGCGGATCTTACCTCCCTGGCAGTACAGCGAAACA
Found at i:49273073 original size:44 final size:43
Alignment explanation
Indices: 49273025--49273226 Score: 160
Period size: 44 Copynumber: 4.7 Consensus size: 43
49273015 AAATCAATCC
* * *
49273025 TATCTCCCTGAGGTTGCATTGGAGCGGATTAAAATCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAATCACAGATCT
* * * * **
49273069 TATCTCTCTGAGGTTGCAGTAGAGCAGATCATGTC-CAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATAAAATCACAGATCT
* * * * *
49273110 TATCTCCTTGAAGATGCAGCGGAGCAGACAGAAGA-AATCA-ATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATA-AA-ATCA-CAGATCT
* * *
49273154 TATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAATCACAGATCT
* *
49273198 TATCTCTCTGAAGTTGCAGTAGAGCAGAT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGAT
49273227 CACATTAGAC
Statistics
Matches: 121, Mismatches: 29, Indels: 17
0.72 0.17 0.10
Matches are distributed among these distances:
41 25 0.21
42 4 0.03
43 8 0.07
44 83 0.69
45 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (43 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATAAAATCACAGATCT
Found at i:49276503 original size:40 final size:40
Alignment explanation
Indices: 49276459--49276540 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
49276449 ATGTCCCAAC
49276459 TGTATGAATTAGGGGAAAAAGCAAAAGAAATGTTGGACAT
1 TGTATGAATTAGGGGAAAAAGCAAAAGAAATGTTGGACAT
49276499 TGTATGAATTAGGGGAAAAAGCAAAAGAAATGTTGGACAT
1 TGTATGAATTAGGGGAAAAAGCAAAAGAAATGTTGGACAT
49276539 TG
1 TG
49276541 GCATAAAAGC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.44, C:0.05, G:0.28, T:0.23
Consensus pattern (40 bp):
TGTATGAATTAGGGGAAAAAGCAAAAGAAATGTTGGACAT
Found at i:49286519 original size:19 final size:20
Alignment explanation
Indices: 49286490--49286552 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
49286480 AAAATACAAG
*
49286490 TTTTAGAATTTTTATAAA-TA
1 TTTT-GAATTTTTAAAAATTA
49286510 TTTTGAA-TTTTAAAAATTA
1 TTTTGAATTTTTAAAAATTA
* *
49286529 TTTTCAATTTTTGAAAATTA
1 TTTTGAATTTTTAAAAATTA
49286549 TTTT
1 TTTT
49286553 ATAATTTTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
18 8 0.21
19 11 0.29
20 19 0.50
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.57
Consensus pattern (20 bp):
TTTTGAATTTTTAAAAATTA
Found at i:49286558 original size:21 final size:20
Alignment explanation
Indices: 49286496--49286562 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
49286486 CAAGTTTTAG
*
49286496 AATTTTT-ATAAA-TATTTTG
1 AATTTTTGA-AAATTATTTTC
*
49286515 AA-TTTTAAAAATTATTTTC
1 AATTTTTGAAAATTATTTTC
*
49286534 AATTTTTGAAAATTATTTTAT
1 AATTTTTGAAAATTATTTT-C
49286555 AATTTTTG
1 AATTTTTG
49286563 TTAAGAGAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
18 7 0.17
19 11 0.27
20 15 0.37
21 8 0.20
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.57
Consensus pattern (20 bp):
AATTTTTGAAAATTATTTTC
Found at i:49289210 original size:6 final size:6
Alignment explanation
Indices: 49289199--49289225 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
49289189 CTTGTGTCTT
49289199 TTCATC TTCATC TTCATC TTCATC TTC
1 TTCATC TTCATC TTCATC TTCATC TTC
49289226 CTACAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.33, G:0.00, T:0.52
Consensus pattern (6 bp):
TTCATC
Found at i:49289951 original size:3 final size:3
Alignment explanation
Indices: 49289932--49289970 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
49289922 ACATGACATG
* * *
49289932 TTA TCA TTA TCA TTA TTA TTA TTA ATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
49289971 AGTACTTGAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:49289971 original size:15 final size:15
Alignment explanation
Indices: 49289943--49289971 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
49289933 TATCATTATC
49289943 ATTATTATTATTAAT
1 ATTATTATTATTAAT
49289958 ATTATTATTATTAA
1 ATTATTATTATTAA
49289972 GTACTTGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTATTATTATTAAT
Found at i:49292161 original size:23 final size:22
Alignment explanation
Indices: 49292135--49292185 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
49292125 CAACATAGTG
* *
49292135 AAAAAAACAA-TAAGAAAATAGC
1 AAAAAAAAAAGTAA-AAAAAAGC
49292157 AAAAAAAAAAGTAAAAAAAAGC
1 AAAAAAAAAAGTAAAAAAAAGC
49292179 AAAAAAA
1 AAAAAAA
49292186 GACCATTTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 23 0.88
23 3 0.12
ACGTcount: A:0.80, C:0.06, G:0.08, T:0.06
Consensus pattern (22 bp):
AAAAAAAAAAGTAAAAAAAAGC
Found at i:49292733 original size:77 final size:77
Alignment explanation
Indices: 49292641--49292788 Score: 224
Period size: 77 Copynumber: 1.9 Consensus size: 77
49292631 TTACACATAA
* * * * *
49292641 TTTACTTGAATGTAATATATAACTACTTTGAAATTTGACACATTTGTTTTATCTGTTCTACTTCT
1 TTTACTTCAATGTAATACATAACTACTTTGAAATTTGACACACTTGTCTTATCTATTCTACTTCT
49292706 AAATGGTTCATT
66 AAATGGTTCATT
* * *
49292718 TTTACTTCAATGTAATACATAGCTTCTTTGAAATTTGACACACTTGTCTTATCTATTCTACTTTT
1 TTTACTTCAATGTAATACATAACTACTTTGAAATTTGACACACTTGTCTTATCTATTCTACTTCT
49292783 AAATGG
66 AAATGG
49292789 GCTTCCAATC
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
77 63 1.00
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.47
Consensus pattern (77 bp):
TTTACTTCAATGTAATACATAACTACTTTGAAATTTGACACACTTGTCTTATCTATTCTACTTCT
AAATGGTTCATT
Found at i:49297506 original size:30 final size:32
Alignment explanation
Indices: 49297445--49297506 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
49297435 GATAACTTAA
*
49297445 TATATATATGTTATAATAAATAACATGAAATG
1 TATATATATGTTATAATAAATAACATAAAATG
49297477 TATATATAT-TATATAAT-AATAA-ATAAAATG
1 TATATATATGT-TATAATAAATAACATAAAATG
49297507 AAACATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 7 0.25
31 6 0.21
32 15 0.54
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (32 bp):
TATATATATGTTATAATAAATAACATAAAATG
Found at i:49297508 original size:35 final size:34
Alignment explanation
Indices: 49297444--49297509 Score: 96
Period size: 35 Copynumber: 1.9 Consensus size: 34
49297434 TGATAACTTA
* * *
49297444 ATATATATATGTTATAATAAATAACATGAAATGT
1 ATATATATATATAATAATAAATAAAATGAAATGT
49297478 ATATATATTATATAATAATAAATAAAATGAAA
1 ATATATA-TATATAATAATAAATAAAATGAAA
49297510 CATAAATGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 7 0.25
35 21 0.75
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (34 bp):
ATATATATATATAATAATAAATAAAATGAAATGT
Found at i:49300567 original size:41 final size:41
Alignment explanation
Indices: 49300501--49300614 Score: 156
Period size: 41 Copynumber: 2.8 Consensus size: 41
49300491 TTAATTAAAA
* *
49300501 CAGATTCAACGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
* * *
49300543 CAGATCACCGGCACGTAGCTTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
* *
49300584 CAGATCACCGGCAATTAGCCTGCTAGACTTA
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTA
49300615 AAGTCTGAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
41 58 0.94
42 4 0.06
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
Found at i:49300894 original size:26 final size:25
Alignment explanation
Indices: 49300840--49300895 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
49300830 AAATCTTAAA
*
49300840 CATATATATATACATATACATTTGAC
1 CATATATATATACATATACAATT-AC
*
49300866 CATATATATATATCAATATATAATT-C
1 CATATATATATA-C-ATATACAATTAC
49300892 CATA
1 CATA
49300896 CCTAATTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 17 0.65
27 1 0.04
28 8 0.31
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.39
Consensus pattern (25 bp):
CATATATATATACATATACAATTAC
Found at i:49307328 original size:44 final size:45
Alignment explanation
Indices: 49307237--49307334 Score: 126
Period size: 44 Copynumber: 2.2 Consensus size: 45
49307227 AAGACTTGTA
* ** *
49307237 TCTTCGATCTACTTCACTACCAGTATGGGAAGACAATATATGCTT
1 TCTTCGATCTACTTCACTACCAATACAGGAAGACAAGATATGCTT
* * *
49307282 TCTTCGATCTACTTCA-TGCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACTACCAATACAGGAAGACAAGATATGCTT
49307326 TCTTCGATC
1 TCTTCGATC
49307335 GATTCCACTG
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 30 0.65
45 16 0.35
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (45 bp):
TCTTCGATCTACTTCACTACCAATACAGGAAGACAAGATATGCTT
Found at i:49308047 original size:43 final size:43
Alignment explanation
Indices: 49307855--49308048 Score: 129
Period size: 44 Copynumber: 4.4 Consensus size: 43
49307845 GATCTGAAAT
* * *
49307855 CTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTTCTGG
1 CTTCAATCTACTCCACTGCTGCCCAGGGAGGTAGAATTACTGG
* * * ***
49307898 CTTCAATGTACTCCACTG-TAACCACAGGGAGGTAAAATTCACCAT
1 CTTCAATCTACTCCACTGCT-GCC-CAGGGAGGTAGAATT-ACTGG
* * * *** * * ** **
49307943 CTTTAATCTGCTCCACTACTGTTTAGGGAGATAAGATTTGTTTT
1 CTTCAATCTACTCCACTGCTGCCCAGGGAGGT-AGAATTACTGG
* *
49307987 CCTCAATCTATTCCACTGCTGCCCAGGGAGGTAGAATTACTGG
1 CTTCAATCTACTCCACTGCTGCCCAGGGAGGTAGAATTACTGG
*
49308030 CTTCAATGTACTCCACTGC
1 CTTCAATCTACTCCACTGC
49308049 AACTTTAGGG
Statistics
Matches: 105, Mismatches: 41, Indels: 10
0.67 0.26 0.06
Matches are distributed among these distances:
42 1 0.01
43 40 0.38
44 44 0.42
45 19 0.18
46 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (43 bp):
CTTCAATCTACTCCACTGCTGCCCAGGGAGGTAGAATTACTGG
Found at i:49310556 original size:132 final size:132
Alignment explanation
Indices: 49307311--49310513 Score: 4472
Period size: 132 Copynumber: 24.3 Consensus size: 132
49307301 CAATACATGA
*** * * * * *
49307311 AGACAAGATCTGCTTTCTTCGATCGATTCCACTGCCGACC-GGGGAGATAGAATTACTGGCTTCA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGGCTTCA
* * * *
49307375 ATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACTATCTTTGATCTACTCCACTACTACTTA
65 ATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTA
*
49307440 GAG
130 GGG
* * *
49307443 AGATAAGATCTGAAATCTTCAATCTATTCCATTACTGCCCAGGG-AGATAGAATTACTGGCTTCA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGGCTTCA
* *
49307507 ATATACTCCACTGTAACCACAAGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTA
65 ATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTA
*
49307572 GGA
130 GGG
* *
49307575 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCTAGGGAAGTAGAATCACTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
*
49307640 TGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGTTTAG
66 TGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAG
49307705 GG
131 GG
* *
49307707 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAAAATTACTAGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
** * * * ** * *
49307772 TGTACTCCGTTGTAACCACAGGGAGGTAAAATTCATCATCTTTGATCTACTCCACCACTTATGAA
66 TGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAG
49307837 GG
131 GG
*
49307839 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTTCTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
* *
49307904 TGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTAATCTGCTCCACTACTGTTTAG
66 TGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAG
49307969 GG
131 GG
* * *** * *
49307971 AGATAAGATTTGTTTTCCTCAATCTATTCCACTGCTGCCCAGGGAGGTAGAATTACTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
* *** * *
49308036 TGTACTCCACTGCAACTTTAGGGAGGTAAAA-TCTGCCATCTTTGATCTGCTCCACTACTGCTTG
66 TGTACTCCACTGTAACCACAGGGAGGTAAAATTC-ACCATCTTTGATCTGCTCCACTACTGCTTA
49308100 GGG
130 GGG
*** * * *
49308103 AGACAAGATCTGTTTTCCTCAATCTATTCCACTACTGCCTAGGG-AGATAGAATTACTGGCTTCA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGGCTTCA
* * *
49308167 ATGTACTCCACTGCAACCTCAGTGAGGTAAAA-TCTACCATCTTTGATCTGCTCCACTACTGCTT
65 ATGTACTCCACTGTAACCACAGGGAGGTAAAATTC-ACCATCTTTGATCTGCTCCACTACTGCTT
*
49308231 GGGG
129 AGGG
* * * * *
49308235 AGACAAGATTTGAAATCTTCAATCTATTCCGCTGTTGTCTAGGGAAGTAGAATTACTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
*** * *
49308300 TGTACTCCACTGTAACCACAGGGAGGTAAAA-TCTGTTATCTTTGATCTACTCCACTACTACTTA
66 TGTACTCCACTGTAACCACAGGGAGGTAAAATTC-ACCATCTTTGATCTGCTCCACTACTGCTTA
*
49308364 GAG
130 GGG
* * *
49308367 AGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAAGGAAGTAGAATTACTAGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
* ** *
49308432 TGTACTGCGTTGTAACCACAGGGAGGTAAAATTCACCATCTTTAATCTGCTCCACTACTGCTTAG
66 TGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAG
49308497 GG
131 GG
* *
49308499 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAAGGAAGTAGAATTACTAGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
* ** *
49308564 TGTACTGCGTTGTAACCACAGGGAGGTAAAATTCACCATCTTTAATCTGCTCCACTACTGCTTAG
66 TGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAG
49308629 GG
131 GG
* *
49308631 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAAGGAAGTAGAATTACTAGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
* ** *
49308696 TGTACTGCGTTGTAACCACAGGGAGGTAAAATTCACCATCTTTAATCTGCTCCACTACTGCTTAG
66 TGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAG
49308761 GG
131 GG
* *
49308763 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAAGGAAGTAGAATTACTAGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
* ** *
49308828 TGTACTGCGTTGTAACCACAGGGAGGTAAAATTCACCATCTTTAATCTGCTCCACTACTGCTTAG
66 TGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAG
49308893 GG
131 GG
* * * * *
49308895 AGGCAATATCTGAAATTTTCAATCTATTCCGCTGCTGCCTAGGGAAGTAGAATTACTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
** *
49308960 TGTACTCCACTGTAACCACAGGGAGGTAAAA-TCTGTCATTTTTGATCTGCTCCACTACTGCTTA
66 TGTACTCCACTGTAACCACAGGGAGGTAAAATTC-ACCATCTTTGATCTGCTCCACTACTGCTTA
49309024 GGG
130 GGG
*
49309027 AGACAAGATCTGAAATCTTCAATCTATTTCACTGCTGCCCAGGG-AGATAGAATTACTGGCTTCA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGGCTTCA
* * **
49309091 ATATACTCCACTGTAACCATAAAGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTA
65 ATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTA
49309156 GGG
130 GGG
* * * * *
49309159 AGGCAATATCTGAAATTTTCAATCTATTCCGCTGCTGCCTAGGGAAGTAGAATTACTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
* * * *
49309224 TGTACTCTACTGTATCCACAGGGAGGTAAAATTCACCATCTTTGATCTACTCCACTACTGCTTGG
66 TGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAG
49309289 GG
131 GG
* * * *
49309291 AGAAAAGATTTGAAATCTTCAATCTATTCCACTGCTGCCTAGGGAAGTAGAATTTCTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
** * *
49309356 CATACTCCACTGTAACCACAGGGAGGAAAAATTCACCATCTTTGATCTGCTCCACTACTGTTTAG
66 TGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAG
49309421 GG
131 GG
* *
49309423 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAAGGAAGTAGAATTACTAGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
* ** * * * ** * *
49309488 TGTACTGCGTTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTACTCCGCCACTTATGAA
66 TGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAG
49309553 GG
131 GG
* *
49309555 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCTAGGGAAGTAGAATTTCTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
* *
49309620 TATACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTAATCTGCTCCACTACTGCTTAG
66 TGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAG
49309685 GG
131 GG
* * *** * * *
49309687 AGATAAGATTTGTTTTCCTCAATCTATTCCACTGCTGCCCAGGGAGGTAGAATTACTAGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
* * * *
49309752 TGTACTCCACTGCAACCTCAGGGAGGTAAAA-TCTGCCATCTTTGATCTGCTCCACTACTGCTTG
66 TGTACTCCACTGTAACCACAGGGAGGTAAAATTC-ACCATCTTTGATCTGCTCCACTACTGCTTA
49309816 GGG
130 GGG
*** * * * *
49309819 AGACAAGATCTGTTTTCCTCAATCTATTCCACTACTGCCTAGAG-AGATAGAATTACTGGCTTCA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGGCTTCA
* * * *
49309883 ATGTACTCCACTGCAACCTCAGTGAGGTAAAA-TCTGCCATCTTTGATCTGCTCCACTACTGCTT
65 ATGTACTCCACTGTAACCACAGGGAGGTAAAATTC-ACCATCTTTGATCTGCTCCACTACTGCTT
*
49309947 GGGG
129 AGGG
* * *
49309951 AGACAAGATTTGAAATCTTCAATCTATTCCGCTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
** *
49310016 TGTACTCCACTGTAACCACAGGGAGGTAAAA-TCTGTCATTTTTGATCTGCTCCACTACTGCTTA
66 TGTACTCCACTGTAACCACAGGGAGGTAAAATTC-ACCATCTTTGATCTGCTCCACTACTGCTTA
49310080 GGG
130 GGG
* *
49310083 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCTAAGG-AGATAGAATTACTGGCTTCA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGGCTTCA
* ***
49310147 ATATACTCCACTGTAACCACAAAAAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTA
65 ATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTA
49310212 GGG
130 GGG
* * *
49310215 AGGCAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCTAGGGAAGTAGAATTACTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
* * *
49310280 TGTACTCCACTGTAACCACAGGGAGGTAAAATTCATCATCTTTGATCTACTCCACTACTGCTTGG
66 TGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAG
49310345 GG
131 GG
* * * *
49310347 AGAAAAGATTTGAAATCTTCAATCTATTCCGCTGCTGTCCAGGGAAGTAGAATTACTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
*
49310412 TGTACTCCACTGTAACCACAGGGAGGTAAAA-TCTGCCATCTTTGATCTGCTCCACTACTGCTTA
66 TGTACTCCACTGTAACCACAGGGAGGTAAAATTC-ACCATCTTTGATCTGCTCCACTACTGCTTA
49310476 GGG
130 GGG
**
49310479 AGACAAGATCTGAAATCTTCAATCTGCTCCACTGC
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGC
49310514 AACCGAGGGA
Statistics
Matches: 2771, Mismatches: 283, Indels: 34
0.90 0.09 0.01
Matches are distributed among these distances:
131 14 0.01
132 2738 0.99
133 19 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (132 bp):
AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
TGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAG
GG
Found at i:49311820 original size:20 final size:19
Alignment explanation
Indices: 49311785--49311823 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
49311775 TTAGCCTCTC
*
49311785 CCTTTTACTTTTTCATTTT
1 CCTTTTACTTTCTCATTTT
49311804 CCTTTTCACTTTCTCATTTT
1 CCTTTT-ACTTTCTCATTTT
49311824 TTCATTTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.10, C:0.26, G:0.00, T:0.64
Consensus pattern (19 bp):
CCTTTTACTTTCTCATTTT
Found at i:49311831 original size:15 final size:17
Alignment explanation
Indices: 49311806--49311841 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
49311796 TTCATTTTCC
49311806 TTTTCACTTTC-TCATT
1 TTTTCACTTTCATCATT
49311822 TTTTCA-TTTCATCATT
1 TTTTCACTTTCATCATT
49311838 TTTT
1 TTTT
49311842 AATGACTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.14, C:0.19, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTCACTTTCATCATT
Found at i:49315874 original size:176 final size:175
Alignment explanation
Indices: 49315575--49315929 Score: 665
Period size: 176 Copynumber: 2.0 Consensus size: 175
49315565 TGAAATTTGT
* *
49315575 AAAAGGATAACCAATTGTTCAAGTCATGTAAAGAAATCGAGTCCCAATAGGTTAGGGTACAATCC
1 AAAAAGATAACCAATTGTTCAAGTCATGTAAAGAAATCGAGTCCCAATACGTTAGGGTACAATCC
49315640 CTCATAATCCCCGAACTTTGAATATCACTTTTATTTTATGCGAAAATCTTCATTTTGAGAAAGTA
66 CTCATAATCCCCGAACTTTGAATATCACTTTTATTTTATGCGAAAATCTTCATTTTGAGAAAGTA
49315705 ACAGGCCACACCCAATACGTTAGGGCACGACAAGTTAAGTTCCCA
131 ACAGGCCACACCCAATACGTTAGGGCACGACAAGTTAAGTTCCCA
*
49315750 CAAAAAGATAACCAATTGTTCAAGTCATGTAAAGAAATCGAGTCTCAATACGTTAGGGTACAATC
1 -AAAAAGATAACCAATTGTTCAAGTCATGTAAAGAAATCGAGTCCCAATACGTTAGGGTACAATC
*
49315815 CCTCATAATCCCCGAACTTTGAATATCACTTTTATTTTATGCGAAAATTTTCATTTTGAGAAAGT
65 CCTCATAATCCCCGAACTTTGAATATCACTTTTATTTTATGCGAAAATCTTCATTTTGAGAAAGT
49315880 AACAGGCCACACCCAATACGTTAGGGCACGACAAGTTAAGTTCCCA
130 AACAGGCCACACCCAATACGTTAGGGCACGACAAGTTAAGTTCCCA
49315926 AAAA
1 AAAA
49315930 TGATTTTTAT
Statistics
Matches: 175, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
175 4 0.02
176 171 0.98
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (175 bp):
AAAAAGATAACCAATTGTTCAAGTCATGTAAAGAAATCGAGTCCCAATACGTTAGGGTACAATCC
CTCATAATCCCCGAACTTTGAATATCACTTTTATTTTATGCGAAAATCTTCATTTTGAGAAAGTA
ACAGGCCACACCCAATACGTTAGGGCACGACAAGTTAAGTTCCCA
Found at i:49317174 original size:31 final size:32
Alignment explanation
Indices: 49317139--49317199 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 32
49317129 CGTATTAATA
49317139 ATTTATGAGAATTA-A-ATCAAATCAAAATTTC
1 ATTTATGA-AATTACACATCAAATCAAAATTTC
49317170 ATTTATGAAATTACACATCAAATCAAAATT
1 ATTTATGAAATTACACATCAAATCAAAATT
49317200 GATATATAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 5 0.18
31 9 0.32
32 14 0.50
ACGTcount: A:0.49, C:0.11, G:0.05, T:0.34
Consensus pattern (32 bp):
ATTTATGAAATTACACATCAAATCAAAATTTC
Found at i:49323481 original size:43 final size:43
Alignment explanation
Indices: 49323417--49323545 Score: 152
Period size: 43 Copynumber: 3.0 Consensus size: 43
49323407 ATACTGTTAT
* *
49323417 AGAACATGACCTTTAGTGGCGCTTTACCCACAAATGCCGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTACCCACAAACGCCGCTAA
* * * *
49323460 AGAACATAAGCTTTAGCGGCGCTTTA-TCACAAACGCCGTTAA
1 AGAACATGACCTTTAGCGGCGCTTTACCCACAAACGCCGCTAA
* * * * *
49323502 AGAACATGACCTTAAGCAGCGCTGTACCGACAAGCGCCGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTACCCACAAACGCCGCTAA
49323545 A
1 A
49323546 AGTACCGTTC
Statistics
Matches: 70, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 34 0.49
43 36 0.51
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (43 bp):
AGAACATGACCTTTAGCGGCGCTTTACCCACAAACGCCGCTAA
Found at i:49324814 original size:21 final size:21
Alignment explanation
Indices: 49324790--49324832 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
49324780 TAAATTATTT
49324790 AAAACCTCAAAATATTTCAAG
1 AAAACCTCAAAATATTTCAAG
* *
49324811 AAAACCTTAAAATGTTTCAAG
1 AAAACCTCAAAATATTTCAAG
49324832 A
1 A
49324833 CAGACAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.51, C:0.16, G:0.07, T:0.26
Consensus pattern (21 bp):
AAAACCTCAAAATATTTCAAG
Found at i:49324827 original size:68 final size:68
Alignment explanation
Indices: 49324743--49324877 Score: 225
Period size: 68 Copynumber: 2.0 Consensus size: 68
49324733 CGAAGACCAT
* *
49324743 AAAACCTCAAAATGTTTCAAGACAGATAAAGAGATAATAAATTATTTAAAACCTCAAAATATTTC
1 AAAACCTCAAAATGTTTCAAGACAGACAAAGAGATAACAAATTATTTAAAACCTCAAAATATTTC
49324808 AAG
66 AAG
* * *
49324811 AAAACCTTAAAATGTTTCAAGACAGACAAAGATATAGCAAATTATTTAAAACCTCAAAATATTTC
1 AAAACCTCAAAATGTTTCAAGACAGACAAAGAGATAACAAATTATTTAAAACCTCAAAATATTTC
49324876 AA
66 AA
49324878 AACAAACAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 62 1.00
ACGTcount: A:0.51, C:0.14, G:0.08, T:0.27
Consensus pattern (68 bp):
AAAACCTCAAAATGTTTCAAGACAGACAAAGAGATAACAAATTATTTAAAACCTCAAAATATTTC
AAG
Found at i:49324876 original size:47 final size:47
Alignment explanation
Indices: 49324811--49324903 Score: 132
Period size: 47 Copynumber: 2.0 Consensus size: 47
49324801 ATATTTCAAG
* * * * *
49324811 AAAACCTTAAAATGTTTCAAGACAGACAAAGATATAGCAAATTATTT
1 AAAACCTCAAAATATTTCAAAACAAACAAAGAGATAGCAAATTATTT
*
49324858 AAAACCTCAAAATATTTCAAAACAAACAAAGAGATAGTAAATTATT
1 AAAACCTCAAAATATTTCAAAACAAACAAAGAGATAGCAAATTATT
49324904 CCAAGACAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.53, C:0.13, G:0.09, T:0.26
Consensus pattern (47 bp):
AAAACCTCAAAATATTTCAAAACAAACAAAGAGATAGCAAATTATTT
Found at i:49324918 original size:30 final size:30
Alignment explanation
Indices: 49324870--49324933 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
49324860 AACCTCAAAA
*
49324870 TATTTCAAAACAAACAAAGAGATAGTAAAT
1 TATTCCAAAACAAACAAAGAGATAGTAAAT
* * *
49324900 TATTCCAAGACAACCAAAGATATAGTAAAT
1 TATTCCAAAACAAACAAAGAGATAGTAAAT
49324930 TATT
1 TATT
49324934 AAAAACCTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.52, C:0.12, G:0.09, T:0.27
Consensus pattern (30 bp):
TATTCCAAAACAAACAAAGAGATAGTAAAT
Found at i:49324924 original size:77 final size:77
Alignment explanation
Indices: 49324828--49324979 Score: 216
Period size: 77 Copynumber: 2.0 Consensus size: 77
49324818 TAAAATGTTT
* *
49324828 CAAGACAGACAAAGATATAGCAAATTATTTAAAACCTCAAAATATTTCAAAACAAACAAAGAGAT
1 CAAGACAGACAAAGATATAGCAAATTATTAAAAACCTCAAAATATTTCAAAACAAACAAAGACAT
49324893 AGTAAATTATTC
66 AGTAAATTATTC
* * * * * *
49324905 CAAGACA-ACCAAAGATATAGTAAATTATTAAAAACCTCAAAATGTTTTAAGAGAGACAAAGACA
1 CAAGACAGA-CAAAGATATAGCAAATTATTAAAAACCTCAAAATATTTCAAAACAAACAAAGACA
49324969 TAGTAAATTAT
65 TAGTAAATTAT
49324980 AAAAAAAACC
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
76 1 0.02
77 65 0.98
ACGTcount: A:0.53, C:0.13, G:0.11, T:0.24
Consensus pattern (77 bp):
CAAGACAGACAAAGATATAGCAAATTATTAAAAACCTCAAAATATTTCAAAACAAACAAAGACAT
AGTAAATTATTC
Found at i:49324985 original size:47 final size:48
Alignment explanation
Indices: 49324914--49325005 Score: 132
Period size: 49 Copynumber: 1.9 Consensus size: 48
49324904 CCAAGACAAC
* * * *
49324914 CAAAGATATAGTAAATTAT-TAAAAACCTCAAAATGTTTTAAGAGAGA
1 CAAAGACATAGTAAATTATAAAAAAACCTCAAAATATTTCAAGAGAGA
49324961 CAAAGACATAGTAAATTATAAAAAAAACCTCAAAATATTTCAAGA
1 CAAAGACATAGTAAATTAT-AAAAAAACCTCAAAATATTTCAAGA
49325006 AAACTTTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 18 0.46
49 21 0.54
ACGTcount: A:0.54, C:0.11, G:0.10, T:0.25
Consensus pattern (48 bp):
CAAAGACATAGTAAATTATAAAAAAACCTCAAAATATTTCAAGAGAGA
Found at i:49325008 original size:21 final size:21
Alignment explanation
Indices: 49324984--49325026 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
49324974 AATTATAAAA
49324984 AAAACCTCAAAATATTTCAAG
1 AAAACCTCAAAATATTTCAAG
* * *
49325005 AAAACTTTAAAATGTTTCAAG
1 AAAACCTCAAAATATTTCAAG
49325026 A
1 A
49325027 CTGATAAAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.51, C:0.14, G:0.07, T:0.28
Consensus pattern (21 bp):
AAAACCTCAAAATATTTCAAG
Found at i:49325069 original size:47 final size:47
Alignment explanation
Indices: 49325005--49325135 Score: 156
Period size: 47 Copynumber: 2.8 Consensus size: 47
49324995 ATATTTCAAG
* * * *
49325005 AAAACTTTAAAATGTTTCAAGACTGATAAAGAGATAGTAAATTATTT
1 AAAACCTTAAAATGTTTCAAGACTAATAAAGAGATAGTAAAATATTA
* * * *
49325052 AAAATCTTAAAATGTTTCAAGACAAACAAAGAGAGAGTAAAATATTA
1 AAAACCTTAAAATGTTTCAAGACTAATAAAGAGATAGTAAAATATTA
* *
49325099 AAAACCTTAACATGTCTCAAGA-TAATCAAAGAGATAG
1 AAAACCTTAAAATGTTTCAAGACTAAT-AAAGAGATAG
49325136 AGATAATGAA
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
46 2 0.03
47 67 0.97
ACGTcount: A:0.50, C:0.10, G:0.13, T:0.27
Consensus pattern (47 bp):
AAAACCTTAAAATGTTTCAAGACTAATAAAGAGATAGTAAAATATTA
Found at i:49325079 original size:194 final size:192
Alignment explanation
Indices: 49324743--49325097 Score: 530
Period size: 194 Copynumber: 1.8 Consensus size: 192
49324733 CGAAGACCAT
* * **
49324743 AAAACCTCAAAATGTTTCAAGACAGATAAAGAGATAATAAATTATTTAAAACCTCAAAATATTTC
1 AAAACCTCAAAATGTTTCAAGACAGACAAAGACATAATAAATTATAAAAAACCTCAAAATATTTC
*
49324808 AAGAAAACCTTAAAATGTTTCAAGACAGACAAAGATATAGCAAATTATTTAAAACCTCAAAATAT
66 AAGAAAACCTTAAAATGTTTCAAGACAGACAAAGAGATAGCAAATTATTTAAAACCTCAAAATAT
* *
49324873 TTCAAAACAAACAAAGAGATAGTAAATTATTCCAAGACAACCAAAGATATAGTAAATTATTA
131 TTCAAAACAAACAAAGAGAGAGTAAAATATTCCAAGACAACCAAAGATATAGTAAATTATTA
* * *
49324935 AAAACCTCAAAATGTTTTAAGAGAGACAAAGACATAGTAAATTATAAAAAAAACCTCAAAATATT
1 AAAACCTCAAAATGTTTCAAGACAGACAAAGACATAATAAATTAT--AAAAAACCTCAAAATATT
* * * * * *
49325000 TCAAGAAAACTTTAAAATGTTTCAAGACTGATAAAGAGATAGTAAATTATTTAAAATCTTAAAAT
64 TCAAGAAAACCTTAAAATGTTTCAAGACAGACAAAGAGATAGCAAATTATTTAAAACCTCAAAAT
* *
49325065 GTTTCAAGACAAACAAAGAGAGAGTAAAATATT
129 ATTTCAAAACAAACAAAGAGAGAGTAAAATATT
49325098 AAAAACCTTA
Statistics
Matches: 143, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
192 40 0.28
194 103 0.72
ACGTcount: A:0.52, C:0.12, G:0.10, T:0.26
Consensus pattern (192 bp):
AAAACCTCAAAATGTTTCAAGACAGACAAAGACATAATAAATTATAAAAAACCTCAAAATATTTC
AAGAAAACCTTAAAATGTTTCAAGACAGACAAAGAGATAGCAAATTATTTAAAACCTCAAAATAT
TTCAAAACAAACAAAGAGAGAGTAAAATATTCCAAGACAACCAAAGATATAGTAAATTATTA
Found at i:49328583 original size:50 final size:51
Alignment explanation
Indices: 49328526--49328657 Score: 160
Period size: 51 Copynumber: 2.6 Consensus size: 51
49328516 GTCATGTGTA
* * *
49328526 TAGTACTATGTGCAGGCTACTACGTGTACCGGA-A-TGATAGGTCGCATGTG
1 TAGTACTATGTGCAGGCTACTATGTGTACCGGATAGT-ATAGATCACATGTG
* * * * *
49328576 TAGTACTATGTGCAGGATACTATGCGTACCGGATAGTTTCGATCACGTGTG
1 TAGTACTATGTGCAGGCTACTATGTGTACCGGATAGTATAGATCACATGTG
*
49328627 TAGTACTATGTGCAGGCTACTATGTGAACCG
1 TAGTACTATGTGCAGGCTACTATGTGTACCG
49328658 AACATCATTG
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
50 30 0.43
51 38 0.55
52 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (51 bp):
TAGTACTATGTGCAGGCTACTATGTGTACCGGATAGTATAGATCACATGTG
Found at i:49328710 original size:45 final size:45
Alignment explanation
Indices: 49328654--49328748 Score: 145
Period size: 45 Copynumber: 2.1 Consensus size: 45
49328644 TACTATGTGA
* * *
49328654 ACCGAACATCATTGATTAGTAAGATGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGACGGTTGCTATGTGCTGAATCC
* *
49328699 ACCGGACATCATTGATTAATAAGGCGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGACGGTTGCTATGTGCTGAATCC
49328744 ACCGA
1 ACCGA
49328749 GTATCTGTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.29
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGACGGTTGCTATGTGCTGAATCC
Found at i:49330297 original size:21 final size:20
Alignment explanation
Indices: 49330248--49330304 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 20
49330238 ATTAAATGGA
49330248 AATTGCAAATGATATTATTTG
1 AATTG-AAATGATATTATTTG
49330269 AATT-AAATGA-ATTATTGTGG
1 AATTGAAATGATATTATT-T-G
*
49330289 TATTGAAATGTATATT
1 AATTGAAATG-ATATT
49330305 GGATTGAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
18 6 0.20
19 7 0.23
20 4 0.13
21 9 0.30
22 1 0.03
23 3 0.10
ACGTcount: A:0.39, C:0.02, G:0.16, T:0.44
Consensus pattern (20 bp):
AATTGAAATGATATTATTTG
Found at i:49335833 original size:21 final size:20
Alignment explanation
Indices: 49335800--49335843 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
49335790 ATAAATAAAA
49335800 TCATTCATGTCAATTCCCTG
1 TCATTCATGTCAATTCCCTG
*
49335820 TCATTCATTGTCAATTTCCTG
1 TCATTCA-TGTCAATTCCCTG
49335841 TCA
1 TCA
49335844 CTCACAACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.20, C:0.27, G:0.09, T:0.43
Consensus pattern (20 bp):
TCATTCATGTCAATTCCCTG
Found at i:49339549 original size:21 final size:21
Alignment explanation
Indices: 49339523--49339577 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
49339513 AACAGCGGTG
*
49339523 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGGTACTGTA
*
49339544 GCGGTGAGATTGGGTACTGTA
1 GCGGTGAGATTAGGTACTGTA
*
49339565 GCAGTGAGATTAG
1 GCGGTGAGATTAG
49339578 AAACAGCGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.24, C:0.09, G:0.38, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTGTA
Found at i:49339713 original size:19 final size:18
Alignment explanation
Indices: 49339689--49339744 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
49339679 TAGAAATTTT
49339689 TAAAATTATTTAACAATTA
1 TAAAATTA-TTAACAATTA
*
49339708 TAAAATTAATAA-ATGATTA
1 TAAAATTATTAACA--ATTA
49339727 -AAAATTATT-ACAATTA
1 TAAAATTATTAACAATTA
49339743 TA
1 TA
49339745 TTTATTTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
16 4 0.13
17 3 0.10
18 12 0.39
19 12 0.39
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (18 bp):
TAAAATTATTAACAATTA
Found at i:49351611 original size:16 final size:15
Alignment explanation
Indices: 49351582--49351610 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
49351572 AATAAATTGA
49351582 TTTTTTTGTTAAAAT
1 TTTTTTTGTTAAAAT
49351597 TTTTTTTGTTAAAA
1 TTTTTTTGTTAAAA
49351611 ACTGGCATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.66
Consensus pattern (15 bp):
TTTTTTTGTTAAAAT
Found at i:49364083 original size:6 final size:6
Alignment explanation
Indices: 49364072--49364109 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
49364062 AAGCAGCCGT
*
49364072 ACTTGC ACTTGC ACTTGC ACTTGC ACTTGC ACATGC AC
1 ACTTGC ACTTGC ACTTGC ACTTGC ACTTGC ACTTGC AC
49364110 GAATTAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.21, C:0.34, G:0.16, T:0.29
Consensus pattern (6 bp):
ACTTGC
Found at i:49370104 original size:30 final size:32
Alignment explanation
Indices: 49370066--49370137 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 32
49370056 AAGTTTCAAT
49370066 TCAGTCACTTAAC-TT-TTGAAAAA-TAACAAAA
1 TCAGTCACTTAACGTTATT-AAAAAGTAAC-AAA
*
49370097 T-AGTCAC-TAACGTTATTAAAAAGTGACAAA
1 TCAGTCACTTAACGTTATTAAAAAGTAACAAA
49370127 TCAGTCACTTA
1 TCAGTCACTTA
49370138 TTAATATTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
29 4 0.11
30 17 0.49
31 12 0.34
32 2 0.06
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.29
Consensus pattern (32 bp):
TCAGTCACTTAACGTTATTAAAAAGTAACAAA
Found at i:49370913 original size:14 final size:14
Alignment explanation
Indices: 49370894--49370932 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
49370884 TGAGTATTTT
*
49370894 AAATATGTTTATTG
1 AAATATGTTTATTC
*
49370908 AAATATTGTGTATTC
1 AAATA-TGTTTATTC
49370923 AAATATGTTT
1 AAATATGTTT
49370933 TCCATTTGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.36, C:0.03, G:0.13, T:0.49
Consensus pattern (14 bp):
AAATATGTTTATTC
Found at i:49392990 original size:69 final size:69
Alignment explanation
Indices: 49392874--49393054 Score: 326
Period size: 69 Copynumber: 2.6 Consensus size: 69
49392864 GCATGGTTTG
*
49392874 CAGACGCCTCATGTTTGAAATCCCAATTCTTTGAATTAATTATTAGATCATTCAAGCAAAACAAT
1 CAGATGCCTCATGTTTGAAATCCCAATTCTTTGAATTAATTATTAGATCATTCAAGCAAAACAAT
49392939 TTTC
66 TTTC
*
49392943 CAGATGCCTCATGTTTGAAATCCCAATTCTTTGAAATAATTATTAGATCATTCAAGCAAAACAAT
1 CAGATGCCTCATGTTTGAAATCCCAATTCTTTGAATTAATTATTAGATCATTCAAGCAAAACAAT
49393008 TTTC
66 TTTC
* *
49393012 CAGATGCCTCATGTTTGAAATCTCATTTCTTTGAATTAATTAT
1 CAGATGCCTCATGTTTGAAATCCCAATTCTTTGAATTAATTAT
49393055 GTGGAAAATA
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 107 1.00
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.37
Consensus pattern (69 bp):
CAGATGCCTCATGTTTGAAATCCCAATTCTTTGAATTAATTATTAGATCATTCAAGCAAAACAAT
TTTC
Found at i:49402904 original size:22 final size:21
Alignment explanation
Indices: 49402851--49402906 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
49402841 CATGTCAACA
*
49402851 TTTAATTA-ATTTTTTAAAAT
1 TTTAATAATATTTTTTAAAAT
*
49402871 TTTAAAAAATATTTTTTAATAAT
1 TTT-AATAATATTTTTTAA-AAT
*
49402894 TTTAATGATATTT
1 TTTAATAATATTT
49402907 AATTTTAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 3 0.10
21 3 0.10
22 17 0.59
23 6 0.21
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
TTTAATAATATTTTTTAAAAT
Found at i:49416411 original size:30 final size:31
Alignment explanation
Indices: 49416359--49416423 Score: 114
Period size: 30 Copynumber: 2.1 Consensus size: 31
49416349 TAAACATTAA
49416359 AAAATTATTTTAAAAATAAAAAAATAAAAAT
1 AAAATTATTTTAAAAATAAAAAAATAAAAAT
*
49416390 AAAATTATTTT-AAAATTAAAAAATAAAAAT
1 AAAATTATTTTAAAAATAAAAAAATAAAAAT
49416420 AAAA
1 AAAA
49416424 AATATATATT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 22 0.67
31 11 0.33
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (31 bp):
AAAATTATTTTAAAAATAAAAAAATAAAAAT
Found at i:49421071 original size:47 final size:47
Alignment explanation
Indices: 49421003--49421095 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
49420993 CGATCCTGGT
49421003 TCTCTCCGGCGTCATCGGAGCAGGGGCTGGGATCAATGACTGCTCGC
1 TCTCTCCGGCGTCATCGGAGCAGGGGCTGGGATCAATGACTGCTCGC
*
49421050 TCTCTCTGGCGTCATCGGAGCAGGGGCTGGGATCAATGACTGCTCG
1 TCTCTCCGGCGTCATCGGAGCAGGGGCTGGGATCAATGACTGCTCG
49421096 AATACTTTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.15, C:0.28, G:0.34, T:0.23
Consensus pattern (47 bp):
TCTCTCCGGCGTCATCGGAGCAGGGGCTGGGATCAATGACTGCTCGC
Found at i:49424310 original size:41 final size:39
Alignment explanation
Indices: 49424265--49424343 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 39
49424255 CAGTGGTATT
49424265 TTCTCGATGTACGGCTG-CACTATATCTTGACCTGCATTTCC
1 TTCTCGATGTACGGCTGCCACTAT-T-TTGA-CTGCATTTCC
49424306 TTCTCGATGTACGGCTGCTCACTATTTTGACTGCATTT
1 TTCTCGATGTACGGCTGC-CACTATTTTGACTGCATTT
49424344 ATCGTTTGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
40 8 0.22
41 21 0.58
42 1 0.03
43 6 0.17
ACGTcount: A:0.16, C:0.27, G:0.18, T:0.39
Consensus pattern (39 bp):
TTCTCGATGTACGGCTGCCACTATTTTGACTGCATTTCC
Found at i:49424636 original size:51 final size:51
Alignment explanation
Indices: 49424576--49424678 Score: 188
Period size: 51 Copynumber: 2.0 Consensus size: 51
49424566 AACCTTATTA
*
49424576 AACTAGATCCAGTATGTAGCATAACAGAAAAGGGGGCATTTCAAGGAGTAG
1 AACTAGATCCAGTATGCAGCATAACAGAAAAGGGGGCATTTCAAGGAGTAG
*
49424627 AACTAGATCCAGTATGCAGCATAACAGAAAAGGGGGTATTTCAAGGAGTAG
1 AACTAGATCCAGTATGCAGCATAACAGAAAAGGGGGCATTTCAAGGAGTAG
49424678 A
1 A
49424679 GCGAGAAGGT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.40, C:0.14, G:0.27, T:0.19
Consensus pattern (51 bp):
AACTAGATCCAGTATGCAGCATAACAGAAAAGGGGGCATTTCAAGGAGTAG
Found at i:49425099 original size:64 final size:64
Alignment explanation
Indices: 49424998--49425125 Score: 229
Period size: 64 Copynumber: 2.0 Consensus size: 64
49424988 AGATGGTAAA
* *
49424998 CTTTGCGGTTGAGGCTGCTGCAGAAGGTGACGCGCTGCTACCCCAACATCGATGCTTGCAAATG
1 CTTTGCGGTTGAGGCTGCTGCAGAAGGTGACGAGCTGCTACCCCAACATCAATGCTTGCAAATG
*
49425062 CTTTGCGGTTGAGGCTGCTGCAGAAGGTGACGAGCTGCTCCCCCAACATCAATGCTTGCAAATG
1 CTTTGCGGTTGAGGCTGCTGCAGAAGGTGACGAGCTGCTACCCCAACATCAATGCTTGCAAATG
49425126 ACAAAGCAAT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.21, C:0.27, G:0.29, T:0.23
Consensus pattern (64 bp):
CTTTGCGGTTGAGGCTGCTGCAGAAGGTGACGAGCTGCTACCCCAACATCAATGCTTGCAAATG
Found at i:49429235 original size:26 final size:25
Alignment explanation
Indices: 49429191--49429487 Score: 153
Period size: 26 Copynumber: 11.8 Consensus size: 25
49429181 TTTAAGTTTT
49429191 TTTTCATATATTATTATTTTAAACTA
1 TTTT-ATATATTATTATTTTAAACTA
* * *
49429217 TTTTATACATTATTCATTTTAAATTG
1 TTTTATATATTATT-ATTTTAAACTA
** *
49429243 TTTTATATGGTATTCATTTCAAACTA
1 TTTTATATATTATT-ATTTTAAACTA
*
49429269 TTTTAT-TGTATATTATTTTAAACTA
1 TTTTATATAT-TATTATTTTAAACTA
* * *
49429294 TTATATATATTATTTATTTTAAATTG
1 TTTTATATATTA-TTATTTTAAACTA
* **
49429320 CTTTATATA-TA-T-TTTCGAACTA
1 TTTTATATATTATTATTTTAAACTA
* * * * *
49429342 TTTTATATTTTATT-TATGATAAGTT
1 TTTTATATATTATTATTTTA-AACTA
** * *
49429367 TTTTCATATGGT-TTATTTTGAACCA
1 TTTT-ATATATTATTATTTTAAACTA
* * *
49429392 TTTTGTATATTATTTATTTTAAATTGG
1 TTTTATATATTA-TTATTTTAAACT-A
*
49429419 TTTTCATATATTATTTATTTTAAAC-C
1 TTTT-ATATATTA-TTATTTTAAACTA
* *
49429445 TTTT-TATATTATATACTTTAAATTA
1 TTTTATATATTAT-TATTTTAAACTA
* *
49429470 TTTTTTACA-TATTATTTT
1 TTTTATATATTATTATTTT
49429488 GTTTCGTTTT
Statistics
Matches: 204, Mismatches: 51, Indels: 34
0.71 0.18 0.12
Matches are distributed among these distances:
22 13 0.06
23 4 0.02
24 27 0.13
25 52 0.25
26 86 0.42
27 4 0.02
28 18 0.09
ACGTcount: A:0.30, C:0.06, G:0.05, T:0.59
Consensus pattern (25 bp):
TTTTATATATTATTATTTTAAACTA
Found at i:49429433 original size:50 final size:49
Alignment explanation
Indices: 49429277--49429434 Score: 169
Period size: 48 Copynumber: 3.2 Consensus size: 49
49429267 TATTTTATTG
* * *
49429277 TATATTATTTTAAACTATTATATATATTATTTATTTTAAATTGCTTT-A
1 TATATTATTTTGAACTATTTTATATATTATTTATTTTAAATTGTTTTCA
* ** *
49429325 TATA-TATTTTCGAACTATTTTATATTTTATTTATGATAAGTT-TTTTCA
1 TATATTATTTT-GAACTATTTTATATATTATTTATTTTAAATTGTTTTCA
* * *
49429373 TATGGTTTATTTTGAACCATTTTGTATATTATTTATTTTAAATTGGTTTTCA
1 TAT--ATTATTTTGAACTATTTTATATATTATTTATTTTAAATT-GTTTTCA
49429425 TATATTATTT
1 TATATTATTT
49429435 ATTTTAAACC
Statistics
Matches: 88, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
47 9 0.10
48 33 0.38
50 31 0.35
51 6 0.07
52 9 0.10
ACGTcount: A:0.30, C:0.05, G:0.06, T:0.59
Consensus pattern (49 bp):
TATATTATTTTGAACTATTTTATATATTATTTATTTTAAATTGTTTTCA
Found at i:49431449 original size:5 final size:5
Alignment explanation
Indices: 49431434--49431478 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
49431424 CTCTTTTTTT
*
49431434 TTGCA TT-CA TTGCA TT-CA -TGCA TTATCA TTGCA TTGCA TTGCA TT
1 TTGCA TTGCA TTGCA TTGCA TTGCA TT-GCA TTGCA TTGCA TTGCA TT
49431479 ATATGCATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
3 1 0.03
4 8 0.24
5 21 0.62
6 4 0.12
ACGTcount: A:0.22, C:0.20, G:0.13, T:0.44
Consensus pattern (5 bp):
TTGCA
Found at i:49431473 original size:10 final size:9
Alignment explanation
Indices: 49431434--49431487 Score: 58
Period size: 9 Copynumber: 5.8 Consensus size: 9
49431424 CTCTTTTTTT
49431434 TTGCATTCA
1 TTGCATTCA
49431443 TTGCATTCA
1 TTGCATTCA
49431452 -TGCATTATCA
1 TTGCA-T-TCA
49431462 TTGCATTGCA
1 TTGCATT-CA
49431472 TTGCATT-A
1 TTGCATTCA
49431480 TATGCATT
1 T-TGCATT
49431488 AAATCTCACA
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
8 6 0.15
9 17 0.43
10 13 0.32
11 4 0.10
ACGTcount: A:0.24, C:0.19, G:0.13, T:0.44
Consensus pattern (9 bp):
TTGCATTCA
Found at i:49431485 original size:19 final size:18
Alignment explanation
Indices: 49431434--49431487 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
49431424 CTCTTTTTTT
49431434 TTGCATTCAT-TGCATTCA
1 TTGCATT-ATATGCATTCA
49431452 -TGCATTATCATTGCATTGCA
1 TTGCATTAT-A-TGCATT-CA
49431472 TTGCATTATATGCATT
1 TTGCATTATATGCATT
49431488 AAATCTCACA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
16 2 0.06
17 6 0.19
19 12 0.39
20 3 0.10
21 8 0.26
ACGTcount: A:0.24, C:0.19, G:0.13, T:0.44
Consensus pattern (18 bp):
TTGCATTATATGCATTCA
Found at i:49431487 original size:24 final size:19
Alignment explanation
Indices: 49431440--49431480 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
49431430 TTTTTTGCAT
49431440 TCATTGCATTCATGCATTA
1 TCATTGCATTCATGCATTA
49431459 TCATTGCATTGCATTGCATTA
1 TCATTGCATT-CA-TGCATTA
49431480 T
1 T
49431481 ATGCATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 10 0.50
20 2 0.10
21 8 0.40
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.44
Consensus pattern (19 bp):
TCATTGCATTCATGCATTA
Found at i:49434191 original size:6 final size:6
Alignment explanation
Indices: 49434182--49434231 Score: 64
Period size: 6 Copynumber: 8.0 Consensus size: 6
49434172 TTAAAAAATT
* *
49434182 AAAAAG AAAAAG AAAAAAAT AAAAAA AAAAAG AAAAAG AAAAAG AAAAAG
1 AAAAAG AAAAAG --AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
49434232 GAGAGGCCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
6 34 0.87
8 5 0.13
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:49434199 original size:20 final size:19
Alignment explanation
Indices: 49434174--49434231 Score: 73
Period size: 18 Copynumber: 3.0 Consensus size: 19
49434164 TACTTCATTT
49434174 AAAAAATTAAAAAGAAAAAG
1 AAAAAA-TAAAAAGAAAAAG
*
49434194 AAAAAAATAAAAAAAAAAAG
1 -AAAAAATAAAAAGAAAAAG
*
49434214 -AAAAAGAAAAAGAAAAAG
1 AAAAAATAAAAAGAAAAAG
49434232 GAGAGGCCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 16 0.47
20 12 0.35
21 6 0.18
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.05
Consensus pattern (19 bp):
AAAAAATAAAAAGAAAAAG
Found at i:49434212 original size:26 final size:27
Alignment explanation
Indices: 49434173--49434224 Score: 88
Period size: 26 Copynumber: 1.9 Consensus size: 27
49434163 ATACTTCATT
49434173 TAAAAAATTAAAAAGAAAAAGAAAAAAA
1 TAAAAAA-TAAAAAGAAAAAGAAAAAAA
49434201 TAAAAAA-AAAAAGAAAAAGAAAAA
1 TAAAAAATAAAAAGAAAAAGAAAAA
49434225 GAAAAAGGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 17 0.71
28 7 0.29
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.08
Consensus pattern (27 bp):
TAAAAAATAAAAAGAAAAAGAAAAAAA
Found at i:49442864 original size:52 final size:52
Alignment explanation
Indices: 49442783--49442885 Score: 179
Period size: 52 Copynumber: 2.0 Consensus size: 52
49442773 GACCTAATTA
*
49442783 TGAAAAAGTTGGGAATTAGGGTTTGGTGTTGCGGTTTTGAATAGGAAAGGCG
1 TGAAAAAGTTGGGAATTAGGGTTTGGTGTTGCGGTTTTAAATAGGAAAGGCG
* *
49442835 TGAAAAAGTTGGGAATTAGTGTTTTGTGTTGCGGTTTTAAATAGGAAAGGC
1 TGAAAAAGTTGGGAATTAGGGTTTGGTGTTGCGGTTTTAAATAGGAAAGGC
49442886 AATGTAGTAG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.28, C:0.04, G:0.35, T:0.33
Consensus pattern (52 bp):
TGAAAAAGTTGGGAATTAGGGTTTGGTGTTGCGGTTTTAAATAGGAAAGGCG
Found at i:49443404 original size:36 final size:36
Alignment explanation
Indices: 49443358--49443548 Score: 238
Period size: 36 Copynumber: 5.0 Consensus size: 36
49443348 GGTAGCTTTA
49443358 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
* * *
49443394 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAA---GT
*
49443433 AGCTTTAGCTACACTTATCTGATCAAGTGAACAAGTGATAAGT
1 -GC--TA--T--ACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
49443476 GTTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
49443512 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
49443548 G
1 G
49443549 GTAGCTTAGC
Statistics
Matches: 134, Mismatches: 11, Indels: 20
0.81 0.07 0.12
Matches are distributed among these distances:
36 96 0.72
38 1 0.01
39 2 0.01
40 4 0.03
42 3 0.02
43 2 0.01
46 26 0.19
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (36 bp):
GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:49443459 original size:82 final size:82
Alignment explanation
Indices: 49443322--49443512 Score: 319
Period size: 82 Copynumber: 2.3 Consensus size: 82
49443312 TTTGAGTACT
* *
49443322 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTATACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
49443387 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
* *
49443404 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAACAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
* *
49443469 GATAAGTGTTATACTTA
66 GATAAGTGCTACACTTA
*
49443486 TCTGATCAAGTGAAAAAGTGATAAGTG
1 TCTGATCAAGAGAAAAAGTGATAAGTG
49443513 CTATACTTAT
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 102 1.00
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (82 bp):
TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGCTACACTTA
Found at i:49443936 original size:35 final size:35
Alignment explanation
Indices: 49443890--49443959 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
49443880 TTTATTGTTT
49443890 TTGTAGATTAACGTATTTATACATTCGGAGGATCG
1 TTGTAGATTAACGTATTTATACATTCGGAGGATCG
*
49443925 TTGTATATTAACGTATTTATACATTCGGAGGATCG
1 TTGTAGATTAACGTATTTATACATTCGGAGGATCG
49443960 GATCTACATC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (35 bp):
TTGTAGATTAACGTATTTATACATTCGGAGGATCG
Found at i:49446783 original size:143 final size:143
Alignment explanation
Indices: 49445572--49446768 Score: 1459
Period size: 143 Copynumber: 8.4 Consensus size: 143
49445562 GATTGAATTC
* * * * *
49445572 ATTATGACGAATCTTATCTTCCTGAAGTTGTAGTGGAGCAGATTAAAGCCACCAGCCTTATCTCC
1 ATTATGGCGGATCTTATCTTTCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * * * ** * *
49445637 CTAAAGTTGCAGCGTAGCACACAGAAGACAGTGAATCTTATTTCCCTAACGTTGCAGTGAAATAG
66 CTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAG
*
49445702 ATTAAACCTACAA
131 ATTAAAGCTACAA
* * * * *
49445715 ATTATGGCAGATCTTATCTTTCTGAAGTTACAGTGGAGAAGATTGAGGCCACCAACCTTATCTCC
1 ATTATGGCGGATCTTATCTTTCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * * * * * * *
49445780 CTGAAG-TGCAACGGAGCAGACTGAAGAAAGTGAATCTAATTTCCCTGGCGTTCCAGTAGAATAG
66 CTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAG
49445844 ATTAAAGCTACAA
131 ATTAAAGCTACAA
* * * *
49445857 ATTATGGCTGATCTTATC-TTCTTGAAGTTGCAATGGAGCAGATTAAAGCCACAAGCCTTATCTC
1 ATTATGGCGGATCTTATCTTTC-TGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTC
* * * * * * *
49445921 CCTGAAGTTGCAACGGAACAAATTGAAGACAGCGAATCTTATTTCCTTGGCCTTGCAGTGGAACA
65 CCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACA
* *
49445986 GATGAAAACTACAA
130 GATTAAAGCTACAA
* *
49446000 ATTATGGTGGATCTTATCTTTCTGAAGTTGCAGTGGCA-CAGATTAAAGCCACCAGCCTTATCTC
1 ATTATGGCGGATCTTATCTTTCTGAAGTTGCAGTGG-AGCAGATTGAAGCCACCAGCCTTATCTC
* * * * * * *
49446064 TCTAAAGTTGTAGCGGAGCAGACTGAAGATAACAAATCTTATTTCACTGGCGTTGTAGTGGAACA
65 CCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACA
*
49446129 GATTAAAGCTAGAA
130 GATTAAAGCTACAA
* * * *
49446143 ATTATGGTGGATCTTATCTTCCTGAAGTTGCAGTGGAGTAGATTGAAGCCACTAGCCTTATCTCC
1 ATTATGGCGGATCTTATCTTTCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * * * ** * *
49446208 TTGAAGTTGCAGCGAAGCAGATTGAAGACAGAAAATCTTATTTTCCTGGCGTTGTAGTGGAACAG
66 CTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAG
*
49446273 ATTAAAGCTAAAA
131 ATTAAAGCTACAA
* * * *
49446286 ATTATGGCTGATCTTATCTTCCTGAAGTTGTAGTGGAGTAGATTGAAGCCACCAGCCTTATCTCC
1 ATTATGGCGGATCTTATCTTTCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * *
49446351 CTAAAGTTGCAGCGGAGTAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCATTGTAACAG
66 CTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAG
49446416 ATTAAAGCTACAA
131 ATTAAAGCTACAA
* * * *
49446429 ATTATGGCGGATTTTATCTTTCTGAATTTGCAGTGAAGCAGATTGAAGCCACCAGCCTTATCTTC
1 ATTATGGCGGATCTTATCTTTCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * * * * * *
49446494 CTGAAGTTGCAGCGGAACATACTAAAGACAACGAATCTTATTTCCCTGGTGTTTCAGTGGAACAG
66 CTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAG
* *
49446559 ATGAAAACTACAA
131 ATTAAAGCTACAA
** * * *
49446572 ATTATGGCAAATCTTATC-TTCTTAAAGTTACAGTGGAGCAGATTGAAGCCACTAGCCTTATCTC
1 ATTATGGCGGATCTTATCTTTC-TGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTC
* * * **
49446636 CCTAAAGTTGCAGCGGAGCAAACTTAAGACAGCGAATCTTATTTCCCTAGCGTCCCAGTGGAACA
65 CCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACA
*
49446701 TG-TTAAAGCTTCAA
130 -GATTAAAGCTACAA
* *
49446715 ATTATGGCGGATCTTATCTTTCTGAAGTTGTAGTGGAGCAGATTGATGCCACCA
1 ATTATGGCGGATCTTATCTTTCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCA
49446769 ATCCTATCTT
Statistics
Matches: 901, Mismatches: 145, Indels: 16
0.85 0.14 0.02
Matches are distributed among these distances:
141 3 0.00
142 122 0.14
143 768 0.85
144 8 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.29
Consensus pattern (143 bp):
ATTATGGCGGATCTTATCTTTCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
CTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAG
ATTAAAGCTACAA
Found at i:49447352 original size:18 final size:18
Alignment explanation
Indices: 49447329--49447372 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
49447319 ACACCAGAGT
49447329 AATCAAAAAAAAGAGAAA
1 AATCAAAAAAAAGAGAAA
* **
49447347 AATCAAAGAAAAGTTAAA
1 AATCAAAAAAAAGAGAAA
49447365 AAT-AAAAA
1 AATCAAAAA
49447373 GAAAAAAGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.75, C:0.05, G:0.09, T:0.11
Consensus pattern (18 bp):
AATCAAAAAAAAGAGAAA
Found at i:49447448 original size:19 final size:21
Alignment explanation
Indices: 49447426--49447464 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
49447416 TTTTTACTCT
49447426 TCTATATTT-TT-TCTTTTTC
1 TCTATATTTGTTATCTTTTTC
*
49447445 TCTATTTTTGTTATCTTTTT
1 TCTATATTTGTTATCTTTTT
49447465 TCCTTATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 2 0.12
21 7 0.41
ACGTcount: A:0.10, C:0.13, G:0.03, T:0.74
Consensus pattern (21 bp):
TCTATATTTGTTATCTTTTTC
Found at i:49447706 original size:27 final size:27
Alignment explanation
Indices: 49447674--49447779 Score: 119
Period size: 27 Copynumber: 3.9 Consensus size: 27
49447664 GTTTATTTAT
* *
49447674 TTATTTTAAAATCTTTTACTATATTAC
1 TTATTTTAAACTTTTTTACTATATTAC
49447701 TTATTTTAAACTTTTTTA-T-TATTAC
1 TTATTTTAAACTTTTTTACTATATTAC
* *
49447726 TTATTTTAAGCTTTTTTTCATATATTA-
1 TTATTTTAAACTTTTTTAC-TATATTAC
*
49447753 TTATTTTAAACTATTTTATACTTTATT
1 TTATTTTAAACT-TTTT-TACTATATT
49447780 CATTTTAAAT
Statistics
Matches: 67, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
25 22 0.33
26 1 0.01
27 28 0.42
28 14 0.21
29 2 0.03
ACGTcount: A:0.29, C:0.08, G:0.01, T:0.61
Consensus pattern (27 bp):
TTATTTTAAACTTTTTTACTATATTAC
Found at i:49447753 original size:24 final size:25
Alignment explanation
Indices: 49447674--49447797 Score: 85
Period size: 25 Copynumber: 4.8 Consensus size: 25
49447664 GTTTATTTAT
*
49447674 TTATTTTAAAATCTTTTACTAT-ATTAC
1 TTATTTT-AAA-CTTTT-TTATCATTAC
*
49447701 TTATTTTAAACTTTTTTATTATTAC
1 TTATTTTAAACTTTTTTATCATTAC
* *
49447726 TTATTTTAAGCTTTTTT-TCATATATTA
1 TTATTTTAAACTTTTTTATCAT-TA--C
* *
49447753 TTATTTTAAACTATTTTATACTTTA-
1 TTATTTTAAACTTTTTTAT-CATTAC
49447778 TTCATTTTAAA-TTGTTTTAT
1 TT-ATTTTAAACTT-TTTTAT
49447798 ATGGTATTCA
Statistics
Matches: 81, Mismatches: 8, Indels: 17
0.76 0.08 0.16
Matches are distributed among these distances:
24 6 0.07
25 31 0.38
26 17 0.21
27 22 0.27
28 3 0.04
29 2 0.02
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (25 bp):
TTATTTTAAACTTTTTTATCATTAC
Found at i:49447784 original size:26 final size:25
Alignment explanation
Indices: 49447674--49448003 Score: 169
Period size: 26 Copynumber: 13.0 Consensus size: 25
49447664 GTTTATTTAT
* *
49447674 TTATTTTAAAATCTTTTACTATATTA
1 TTATTTTAAATTATTTTA-TATATTA
49447700 CTTATTTTAAACTT-TTTTAT-TATTA
1 -TTATTTTAAA-TTATTTTATATATTA
* *
49447725 CTTATTTTAAGCTTTTTTTCATATATTA
1 -TTATTTTAA-ATTATTTT-ATATATTA
*
49447753 TTATTTTAAACTATTTTATACT-TTA
1 TTATTTTAAATTATTTTATA-TATTA
* **
49447778 TTCATTTTAAATTGTTTTATATGGTA
1 TT-ATTTTAAATTATTTTATATATTA
* * *
49447804 TTCATTTCAAATTGTTTTAT-TGTGTA
1 TT-ATTTTAAATTATTTTATATAT-TA
* * *
49447830 TTATATTAAACTATTATATATATTA
1 TTATTTTAAATTATTTTATATATTA
*
49447855 TTTATTTTAAATTA-CTT-TATA-TA
1 -TTATTTTAAATTATTTTATATATTA
* * * *
49447878 TT-TTTTGAACTGTTTTATATTTTA
1 TTATTTTAAATTATTTTATATATTA
** * **
49447902 TTTATGATAAGTT-TTTTCATATGGT-
1 -TTATTTTAAATTATTTT-ATATATTA
* ** *
49447927 TTATTTTCAACCATTTTGTATATTA
1 TTATTTTAAATTATTTTATATATTA
49447952 TTTATTTTAAATTTATTTTATATATTA
1 -TTATTTTAAA-TTATTTTATATATTA
*
49447979 TTCATTTTAAACTTTTTTTAT-TATT
1 TT-ATTTTAAA-TTATTTTATATATT
49448004 TTCTTTAAAT
Statistics
Matches: 234, Mismatches: 47, Indels: 45
0.72 0.14 0.14
Matches are distributed among these distances:
21 7 0.03
22 4 0.02
23 5 0.02
24 16 0.07
25 53 0.23
26 89 0.38
27 54 0.23
28 6 0.03
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.60
Consensus pattern (25 bp):
TTATTTTAAATTATTTTATATATTA
Found at i:49447969 original size:27 final size:28
Alignment explanation
Indices: 49447939--49448003 Score: 91
Period size: 27 Copynumber: 2.4 Consensus size: 28
49447929 ATTTTCAACC
* *
49447939 ATTTTGTATATTATTTATTTTAAA-TTT
1 ATTTTATATATTATTCATTTTAAACTTT
49447966 ATTTTATATATTATTCATTTTAAACTTT
1 ATTTTATATATTATTCATTTTAAACTTT
49447994 -TTTTAT-TATT
1 ATTTTATATATT
49448004 TTCTTTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
26 4 0.11
27 28 0.80
28 3 0.09
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (28 bp):
ATTTTATATATTATTCATTTTAAACTTT
Found at i:49448010 original size:23 final size:23
Alignment explanation
Indices: 49447947--49448014 Score: 68
Period size: 27 Copynumber: 2.8 Consensus size: 23
49447937 CCATTTTGTA
49447947 TATTATTTAT-TTTAAATTTATTT
1 TATTATTT-TCTTTAAATTTATTT
49447970 TATATATTATTCATTTTAAACTTT-TTT
1 TAT-TATT-TTC--TTTAAA-TTTATTT
49447997 TATTATTTTCTTTAAATT
1 TATTATTTTCTTTAAATT
49448015 GCTTCATTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
22 2 0.05
23 9 0.23
24 5 0.13
25 4 0.10
26 4 0.10
27 12 0.31
28 3 0.08
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.66
Consensus pattern (23 bp):
TATTATTTTCTTTAAATTTATTT
Found at i:49448087 original size:49 final size:47
Alignment explanation
Indices: 49447948--49448087 Score: 122
Period size: 50 Copynumber: 2.8 Consensus size: 47
49447938 CATTTTGTAT
* * **
49447948 ATTATTTATTTTAAATT-TATTTTATATATTATTCATTTTAAACTTTTTTT
1 ATTATTTACTTTAAATTGT-TTTT-TACA-TATT-ATTTTAAACTTTTTAG
* *
49447998 ATTATTTTCTTTAAATTGCTTCATTTATCAT-TTATTTTAAACCTTTTTAG
1 ATTATTTACTTTAAATTG-TT-TTTTA-CATATTATTTTAAA-CTTTTTAG
*
49448048 ATTATTTACTTTAAATTGTTTTTTACATATTGATATTAAA
1 ATTATTTACTTTAAATTGTTTTTTACATATT-ATTTTAAA
49448088 GTGACATGTG
Statistics
Matches: 74, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
47 3 0.04
48 6 0.08
49 17 0.23
50 40 0.54
51 4 0.05
52 4 0.05
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (47 bp):
ATTATTTACTTTAAATTGTTTTTTACATATTATTTTAAACTTTTTAG
Found at i:49450438 original size:147 final size:147
Alignment explanation
Indices: 49450164--49450438 Score: 424
Period size: 147 Copynumber: 1.9 Consensus size: 147
49450154 AACGAGAATG
* * *
49450164 TGGTGGAAAAAATAAAGGAATAGAAGGAACTGCAGTTGGGATTGTGGGGACTGAGGGAATGCTTG
1 TGGTGGAAAAAAGAAAGAAATAGAAGGAACTGCAATTGGGATTGTGGGGACTGAGGGAATGCTTG
* * ***
49450229 GCAGAGGGGGTAGTCTTCTTGCCAATGTGGTAGGAAGTGGAGGAAGCGCCCCAGGGTTTGGGAGA
66 GCAGAGGGGGCAGTCCTCTTGCCAATGTGGTAGGAAGTGGAGGAAGCGCCCCAGGCAATGGGAGA
49450294 TTAGAGACAGATGGCAA
131 TTAGAGACAGATGGCAA
* * *
49450311 TGGTGGAAAAGAGAAAGAAATAGAGGGAATTGCAATTGGGATTGTGGGGACTGAGGGAATGCTTG
1 TGGTGGAAAAAAGAAAGAAATAGAAGGAACTGCAATTGGGATTGTGGGGACTGAGGGAATGCTTG
* * *
49450376 GTAGAGGGGGCAGTCCTCTTGGCAATGTGGTAGGAAGTGGAGGAAGTGCCCCAGGCAATGGGA
66 GCAGAGGGGGCAGTCCTCTTGCCAATGTGGTAGGAAGTGGAGGAAGCGCCCCAGGCAATGGGA
49450439 ATGATGGTCG
Statistics
Matches: 114, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
147 114 1.00
ACGTcount: A:0.29, C:0.11, G:0.40, T:0.20
Consensus pattern (147 bp):
TGGTGGAAAAAAGAAAGAAATAGAAGGAACTGCAATTGGGATTGTGGGGACTGAGGGAATGCTTG
GCAGAGGGGGCAGTCCTCTTGCCAATGTGGTAGGAAGTGGAGGAAGCGCCCCAGGCAATGGGAGA
TTAGAGACAGATGGCAA
Found at i:49450881 original size:20 final size:20
Alignment explanation
Indices: 49450856--49450897 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
49450846 GGAACTATCA
*
49450856 TAGAATTAGGGGATTACAAC
1 TAGAATTAGGGAATTACAAC
49450876 TAGAATTAGGGAATTACAAC
1 TAGAATTAGGGAATTACAAC
49450896 TA
1 TA
49450898 ATTATAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.21, T:0.26
Consensus pattern (20 bp):
TAGAATTAGGGAATTACAAC
Found at i:49451196 original size:396 final size:396
Alignment explanation
Indices: 49450593--49451310 Score: 1427
Period size: 396 Copynumber: 1.8 Consensus size: 396
49450583 AAGAGGCCAT
*
49450593 TTTTGTTTAGAGATTTCAAAACAAATGAAGCAGAAGAAACAAAGTTCTTTGTCCTATCGTTTGTA
1 TTTTATTTAGAGATTTCAAAACAAATGAAGCAGAAGAAACAAAGTTCTTTGTCCTATCGTTTGTA
49450658 CGTAAGCATGTAGTCATTTGTCCCTTTAAAAGGTCTCAAAACTTTCTTTGCAGCTCTCGAGTGGT
66 CGTAAGCATGTAGTCATTTGTCCCTTTAAAAGGTCTCAAAACTTTCTTTGCAGCTCTCGAGTGGT
49450723 CAATACCTAGATTACTCTGATGTCTTCCTGTTGAGACTATAGAGTAGAATATTTGAAAAAATGGC
131 CAATACCTAGATTACTCTGATGTCTTCCTGTTGAGACTATAGAGTAGAATATTTGAAAAAATGGC
49450788 TTGATTTTCCATTGATTAAGAAAGAATATATATATACACAAATTGGGAAACATATATAGGAACTA
196 TTGATTTTCCATTGATTAAGAAAGAATATATATATACACAAATTGGGAAACATATATAGGAACTA
49450853 TCATAGAATTAGGGGATTACAACTAGAATTAGGGAATTACAACTAATTATAATATGTAGAATTTA
261 TCATAGAATTAGGGGATTACAACTAGAATTAGGGAATTACAACTAATTATAATATGTAGAATTTA
49450918 TTTTTATTTCCTATTAATTTTACCAATTCTTTAATTAACAAATTTACAATAACTTGCGTTAACTT
326 TTTTTATTTCCTATTAATTTTACCAATTCTTTAATTAACAAATTTACAATAACTTGCGTTAACTT
49450983 TTTATA
391 TTTATA
49450989 TTTTATTTAGAGATTTCAAAACAAATGAAGCAGAAGAAACAAAGTTCTTTGTCCTATCGTTTGTA
1 TTTTATTTAGAGATTTCAAAACAAATGAAGCAGAAGAAACAAAGTTCTTTGTCCTATCGTTTGTA
49451054 CGTAAGCATGTAGTCATTTGTCCCTTTAAAAGGTCTCAAAACTTTCTTTGCAGCTCTCGAGTGGT
66 CGTAAGCATGTAGTCATTTGTCCCTTTAAAAGGTCTCAAAACTTTCTTTGCAGCTCTCGAGTGGT
49451119 CAATACCTAGATTACTCTGATGTCTTCCTGTTGAGACTATAGAGTAGAATATTTGAAAAAATGGC
131 CAATACCTAGATTACTCTGATGTCTTCCTGTTGAGACTATAGAGTAGAATATTTGAAAAAATGGC
49451184 TTGATTTTCCATTGATTAAGAAAGAATATATATATACACAAATTGGGAAACATATATAGGAACTA
196 TTGATTTTCCATTGATTAAGAAAGAATATATATATACACAAATTGGGAAACATATATAGGAACTA
49451249 TCATAGAATTAGGGGATTACAACTAGAATTAGGGAATTACAACTAATTATAATATGTAGAAT
261 TCATAGAATTAGGGGATTACAACTAGAATTAGGGAATTACAACTAATTATAATATGTAGAAT
49451311 ATCTTTGGGA
Statistics
Matches: 321, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
396 321 1.00
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (396 bp):
TTTTATTTAGAGATTTCAAAACAAATGAAGCAGAAGAAACAAAGTTCTTTGTCCTATCGTTTGTA
CGTAAGCATGTAGTCATTTGTCCCTTTAAAAGGTCTCAAAACTTTCTTTGCAGCTCTCGAGTGGT
CAATACCTAGATTACTCTGATGTCTTCCTGTTGAGACTATAGAGTAGAATATTTGAAAAAATGGC
TTGATTTTCCATTGATTAAGAAAGAATATATATATACACAAATTGGGAAACATATATAGGAACTA
TCATAGAATTAGGGGATTACAACTAGAATTAGGGAATTACAACTAATTATAATATGTAGAATTTA
TTTTTATTTCCTATTAATTTTACCAATTCTTTAATTAACAAATTTACAATAACTTGCGTTAACTT
TTTATA
Found at i:49451277 original size:20 final size:20
Alignment explanation
Indices: 49451252--49451293 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
49451242 GGAACTATCA
*
49451252 TAGAATTAGGGGATTACAAC
1 TAGAATTAGGGAATTACAAC
49451272 TAGAATTAGGGAATTACAAC
1 TAGAATTAGGGAATTACAAC
49451292 TA
1 TA
49451294 ATTATAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.21, T:0.26
Consensus pattern (20 bp):
TAGAATTAGGGAATTACAAC
Found at i:49457741 original size:43 final size:43
Alignment explanation
Indices: 49457693--49457794 Score: 102
Period size: 43 Copynumber: 2.4 Consensus size: 43
49457683 AGCTCGTACA
* **
49457693 ATGCCAACGTCCCAGGC-GTGGTCTTACAT-GTATTCACAAATCG
1 ATGCCAACGTCCCAGACAG-GGTCTTAC-TCGTAAACACAAATCG
* * *
49457736 ATGCC-ACAGTCCTAGACAGGGTCTTACTCGTAAACACAAGTTG
1 ATGCCAAC-GTCCCAGACAGGGTCTTACTCGTAAACACAAATCG
49457779 ATGCCAACGTCCCAGA
1 ATGCCAACGTCCCAGA
49457795 TTTGGCCTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
42 3 0.06
43 42 0.88
44 3 0.06
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACAGGGTCTTACTCGTAAACACAAATCG
Found at i:49468755 original size:27 final size:26
Alignment explanation
Indices: 49468721--49468784 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 26
49468711 TAAATTTATA
*
49468721 AATTTTA-TCATTATAAATATGATTTT
1 AATTTTATTCAGTATAAA-ATGATTTT
*
49468747 AATTCTTATTTAGTATAAAATGATTTT
1 AATT-TTATTCAGTATAAAATGATTTT
49468774 AAGTATTTATT
1 AA-T-TTTATT
49468785 TTTAATTTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
26 4 0.12
27 13 0.41
28 14 0.44
29 1 0.03
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (26 bp):
AATTTTATTCAGTATAAAATGATTTT
Found at i:49474619 original size:37 final size:36
Alignment explanation
Indices: 49474566--49474639 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 36
49474556 AAGCCTAGGT
* * *
49474566 ATCTTGCCTACTCTTTCCCTTATGACACACAGTGAA
1 ATCTTGCCTACACTTTCCCCTATGACACAAAGTGAA
*
49474602 ANTCTTGCCTACACTTTCCCCTATGACATAAAGTGAA
1 A-TCTTGCCTACACTTTCCCCTATGACACAAAGTGAA
49474639 A
1 A
49474640 AATAGTCAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
36 1 0.03
37 32 0.97
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.31
Consensus pattern (36 bp):
ATCTTGCCTACACTTTCCCCTATGACACAAAGTGAA
Found at i:49481311 original size:12 final size:12
Alignment explanation
Indices: 49481294--49481353 Score: 54
Period size: 12 Copynumber: 4.9 Consensus size: 12
49481284 ACTTAATCAC
49481294 TTTAATATTAAA
1 TTTAATATTAAA
49481306 TTTAATA-TAATA
1 TTTAATATTAA-A
*
49481318 TTT-ATCTGATAAA
1 TTTAATAT--TAAA
49481331 TATT-ATATTAAA
1 T-TTAATATTAAA
49481343 TTTAATATTAA
1 TTTAATATTAA
49481354 GTCTTATTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
11 7 0.17
12 23 0.57
13 2 0.05
14 8 0.20
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:49485170 original size:147 final size:147
Alignment explanation
Indices: 49484896--49485170 Score: 415
Period size: 147 Copynumber: 1.9 Consensus size: 147
49484886 AAGGAGAAGG
*
49484896 TGGTGGAGAAAAGAAAGGAATAGAGGGAACTGCAATTGGGATTGTGGGGACTAAGGGAATGCTTG
1 TGGTGGAGAAAAGAAAGGAATAGAGGGAACTGCAATTGGGATTGTGGAGACTAAGGGAATGCTTG
* **
49484961 GCAGAGGGGCCAGTCCTCTTGGAAATGTGGTAGGAAGTGGAGGAAGCACCCCAGGATTTGGGAGA
66 GCAGAGGGGCCAGTCCTATTGGAAATGTGGTAGGAAGTGGAGGAAGCACCCCAGGACATGGGAGA
49485026 TTAGGGAATGATGGCAA
131 TTAGGGAATGATGGCAA
* * * * *
49485043 TGGTGGAGAAGAGAAAGGAATAGGGGGAATTGCAGTTGGGATTGTGGAGACTGAGGGAATGCTTG
1 TGGTGGAGAAAAGAAAGGAATAGAGGGAACTGCAATTGGGATTGTGGAGACTAAGGGAATGCTTG
** * * * *
49485108 GCAGAGGGGGTAGTCCTATTGGCAATGTGGTAGGAAGTGGAGGAAGCGCCCCGGGCCATGGGA
66 GCAGAGGGGCCAGTCCTATTGGAAATGTGGTAGGAAGTGGAGGAAGCACCCCAGGACATGGGA
49485171 ATGATGGTCG
Statistics
Matches: 113, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
147 113 1.00
ACGTcount: A:0.28, C:0.11, G:0.42, T:0.19
Consensus pattern (147 bp):
TGGTGGAGAAAAGAAAGGAATAGAGGGAACTGCAATTGGGATTGTGGAGACTAAGGGAATGCTTG
GCAGAGGGGCCAGTCCTATTGGAAATGTGGTAGGAAGTGGAGGAAGCACCCCAGGACATGGGAGA
TTAGGGAATGATGGCAA
Found at i:49495595 original size:24 final size:23
Alignment explanation
Indices: 49495526--49495596 Score: 72
Period size: 22 Copynumber: 3.1 Consensus size: 23
49495516 TGCATATTAC
* *
49495526 TACATGTAGGGTTCGCATAAATA
1 TACATATAGGGTTCACATAAATA
**
49495549 -ACATATAGGGTTCACATGCATA
1 TACATATAGGGTTCACATAAATA
* *
49495571 TTCATCCTAGGGTTCACATAAATA
1 TACAT-ATAGGGTTCACATAAATA
49495595 TA
1 TA
49495597 TCAAAAGATC
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
22 18 0.49
23 3 0.08
24 16 0.43
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (23 bp):
TACATATAGGGTTCACATAAATA
Found at i:49497518 original size:22 final size:23
Alignment explanation
Indices: 49497472--49497518 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
49497462 ATTAATTTCT
**
49497472 ATAATAGATGTTTTAATTCTTTA
1 ATAATAGATGTTTTAATTCAATA
*
49497495 ATAATAG-TGTTTTATTTCAATA
1 ATAATAGATGTTTTAATTCAATA
49497517 AT
1 AT
49497519 TTCACCTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.36, C:0.04, G:0.09, T:0.51
Consensus pattern (23 bp):
ATAATAGATGTTTTAATTCAATA
Found at i:49497751 original size:60 final size:64
Alignment explanation
Indices: 49497677--49497800 Score: 166
Period size: 65 Copynumber: 2.0 Consensus size: 64
49497667 TGATCAAATC
* * *
49497677 AATTAATCAAATCAACCACTACGA-T-C-A-GAGTTGTCAACTAATTGTCAAATAAGATATATT
1 AATTAATCAAATCAACCACTACAATTACAATCAGTTCTCAACTAATTGTCAAATAAGATATATT
* *
49497737 AATTAATCATATCAACCACTACAATTAACAATCAGTTCTCAACTAATTGTCAAGTAAGATATAT
1 AATTAATCAAATCAACCACTACAATT-ACAATCAGTTCTCAACTAATTGTCAAATAAGATATAT
49497801 ATATATATAT
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
60 22 0.41
61 1 0.02
63 1 0.02
64 1 0.02
65 29 0.54
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.31
Consensus pattern (64 bp):
AATTAATCAAATCAACCACTACAATTACAATCAGTTCTCAACTAATTGTCAAATAAGATATATT
Found at i:49498123 original size:14 final size:15
Alignment explanation
Indices: 49498104--49498135 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
49498094 ACTGTGTCAC
49498104 ATATGA-TTTTTTTA
1 ATATGATTTTTTTTA
49498118 ATATGATTTTTTTTA
1 ATATGATTTTTTTTA
49498133 ATA
1 ATA
49498136 GCATAACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (15 bp):
ATATGATTTTTTTTA
Found at i:49500256 original size:63 final size:63
Alignment explanation
Indices: 49500180--49500309 Score: 163
Period size: 63 Copynumber: 2.1 Consensus size: 63
49500170 GTGGTAGGCT
* * * * *
49500180 GTGTAACTTACTGTTTGGGAAA-TAGAGTCACACGAGCCGGAGGCAAGGGCATGTGTCCAAGCC
1 GTGTAACTCACTGTTT-GGAAATTAGAGTCACACAAGCCAGAGACAAGGGCATGTGTCCAAGCA
* * * *
49500243 GTGTAACTCACTGTTTTGAAATTAGATTCATACAAGCCAGAGACACGGGCATGTGTCCAAGCA
1 GTGTAACTCACTGTTTGGAAATTAGAGTCACACAAGCCAGAGACAAGGGCATGTGTCCAAGCA
49500306 GTGT
1 GTGT
49500310 GAGAGAATTT
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
62 4 0.07
63 53 0.93
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (63 bp):
GTGTAACTCACTGTTTGGAAATTAGAGTCACACAAGCCAGAGACAAGGGCATGTGTCCAAGCA
Found at i:49503169 original size:25 final size:23
Alignment explanation
Indices: 49503115--49503157 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
49503105 AATGCTTGAG
49503115 TTATATA-GTTTTGGTCATGATA
1 TTATATATGTTTTGGTCATGATA
49503137 TATATATATGTTTTGG-CATGA
1 T-TATATATGTTTTGGTCATGA
49503158 AGTAATTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 1 0.05
23 11 0.58
24 7 0.37
ACGTcount: A:0.28, C:0.05, G:0.19, T:0.49
Consensus pattern (23 bp):
TTATATATGTTTTGGTCATGATA
Found at i:49504997 original size:14 final size:14
Alignment explanation
Indices: 49504978--49505004 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
49504968 ATTTCATTCC
49504978 ACATATATATATAT
1 ACATATATATATAT
49504992 ACATATATATATA
1 ACATATATATATA
49505005 AACACATAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
ACATATATATATAT
Found at i:49505354 original size:21 final size:22
Alignment explanation
Indices: 49505322--49505366 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
49505312 ATTTTCACAC
49505322 CAAAATTTGGACAGCATATATA
1 CAAAATTTGGACAGCATATATA
* *
49505344 CAAAA-TTGGACTGCATTTATA
1 CAAAATTTGGACAGCATATATA
49505365 CA
1 CA
49505367 TCAAAAATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (22 bp):
CAAAATTTGGACAGCATATATA
Found at i:49505466 original size:140 final size:140
Alignment explanation
Indices: 49505322--49506556 Score: 2339
Period size: 140 Copynumber: 8.8 Consensus size: 140
49505312 ATTTTCACAC
* * * *
49505322 CAAAATTTGGACAGCATATATACA-A-AATTGGACTGCATTTATACATCAAAAATTGACAGCATA
1 CAAAAATT-GACAGCATATACAAATATAATTGGACTGC-CTTATACATCAAAAATTGACAGCATA
49505385 TACATATATATTTGGACTGCATTTGTACATCAAAATTTGACAGCATATACATATATAATTGGACT
64 TACATATATATTTGGACTGCATTTGTACATCAAAATTTGACAGCATATACATATATAATTGGACT
49505450 GCATTTATATGT
129 GCATTTATATGT
49505462 CAAAAATTGACAGCATATACAAATATAATTGGACTGCCTTATACATCAAAAATTGACAGCATATA
1 CAAAAATTGACAGCATATACAAATATAATTGGACTGCCTTATACATCAAAAATTGACAGCATATA
49505527 CATATATATTTGGACTGCATTTGTACATCAAAATTTGACAGCATATACATATATAATTGGACTGC
66 CATATATATTTGGACTGCATTTGTACATCAAAATTTGACAGCATATACATATATAATTGGACTGC
49505592 ATTTATATGT
131 ATTTATATGT
49505602 CAAAAATTGACAGCATATACAAATATAATTGGACTGCCTTATACATCAAAAATTGACAGCATATA
1 CAAAAATTGACAGCATATACAAATATAATTGGACTGCCTTATACATCAAAAATTGACAGCATATA
49505667 CATATATATTTGGACTGCATTTGTACATCAAAATTTGACAGCATATACATATATAATTGGACTGC
66 CATATATATTTGGACTGCATTTGTACATCAAAATTTGACAGCATATACATATATAATTGGACTGC
49505732 ATTTATATGT
131 ATTTATATGT
49505742 CAAAAATTGACAGCATATACAAATATAATTGGACTGCCTTATACATCAAAAATTGACAGCATATA
1 CAAAAATTGACAGCATATACAAATATAATTGGACTGCCTTATACATCAAAAATTGACAGCATATA
49505807 CATATATATTTGGACTGCATTTGTACATCAAAATTTGACAGCATATACATATATAATTGGACTGC
66 CATATATATTTGGACTGCATTTGTACATCAAAATTTGACAGCATATACATATATAATTGGACTGC
49505872 ATTTATATGT
131 ATTTATATGT
49505882 CAAAAATTGACAGCATATACAAATATAATTGGACTGCCTTATACATCAAAAATTGACAGCATATA
1 CAAAAATTGACAGCATATACAAATATAATTGGACTGCCTTATACATCAAAAATTGACAGCATATA
49505947 CATATATATTTGGACTGCATTTGTACATCAAAATTTGACAGCATATACATATATAATTGGACTGC
66 CATATATATTTGGACTGCATTTGTACATCAAAATTTGACAGCATATACATATATAATTGGACTGC
49506012 ATTTATATGT
131 ATTTATATGT
49506022 CAAAAATTGACAGCATATACAAATATAATTGGACTGCCTTATACATCAAAAATTGACAGCATATA
1 CAAAAATTGACAGCATATACAAATATAATTGGACTGCCTTATACATCAAAAATTGACAGCATATA
49506087 CATATATATTTGGACTGCATTTGTACATCAAAATTTGACAGCATATACATATATAATTGGACTGC
66 CATATATATTTGGACTGCATTTGTACATCAAAATTTGACAGCATATACATATATAATTGGACTGC
49506152 ATTTATATGT
131 ATTTATATGT
49506162 CAAAAATTGACAGCATATACAAATATAATTGGACTGCCTTATACATCAAAAATTGACAGCATATA
1 CAAAAATTGACAGCATATACAAATATAATTGGACTGCCTTATACATCAAAAATTGACAGCATATA
49506227 CATATATATTTGGACTGCATTTGTACATCAAAATTTGACAGCATATACATATATAATTGGACTGC
66 CATATATATTTGGACTGCATTTGTACATCAAAATTTGACAGCATATACATATATAATTGGACTGC
49506292 ATTTATATGT
131 ATTTATATGT
49506302 CAAAAATTGACAGCATATACAAATATAATTGGACTGCCTTATACATCAAAAATTGACAGCATATA
1 CAAAAATTGACAGCATATACAAATATAATTGGACTGCCTTATACATCAAAAATTGACAGCATATA
49506367 CATATATATTTGGACTGCATTTGTACATCAAAATTTGACAGCATATACATATATAATTGGACTGC
66 CATATATATTTGGACTGCATTTGTACATCAAAATTTGACAGCATATACATATATAATTGGACTGC
*
49506432 ATTTATACGT
131 ATTTATATGT
* * * *
49506442 AAAAAATTGACAGCATATACATATATAATTGGATTGCCTTATACATAAAAAATTGACAGCATATA
1 CAAAAATTGACAGCATATACAAATATAATTGGACTGCCTTATACATCAAAAATTGACAGCATATA
* *
49506507 CATATATAATTGGACTGCATTTGTACATCAAATTTTGACAGCATATACAT
66 CATATATATTTGGACTGCATTTGTACATCAAAATTTGACAGCATATACAT
49506557 TCATTTACTC
Statistics
Matches: 1082, Mismatches: 11, Indels: 4
0.99 0.01 0.00
Matches are distributed among these distances:
139 13 0.01
140 1058 0.98
141 11 0.01
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (140 bp):
CAAAAATTGACAGCATATACAAATATAATTGGACTGCCTTATACATCAAAAATTGACAGCATATA
CATATATATTTGGACTGCATTTGTACATCAAAATTTGACAGCATATACATATATAATTGGACTGC
ATTTATATGT
Found at i:49506834 original size:14 final size:15
Alignment explanation
Indices: 49506810--49506844 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
49506800 TATATACATT
49506810 ACCATATAAATACTA
1 ACCATATAAATACTA
49506825 ACCATA-AAATACTA
1 ACCATATAAATACTA
49506839 ATCCAT
1 A-CCAT
49506845 GATTAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (15 bp):
ACCATATAAATACTA
Found at i:49507584 original size:43 final size:43
Alignment explanation
Indices: 49507502--49507619 Score: 123
Period size: 43 Copynumber: 2.7 Consensus size: 43
49507492 TACAATACCA
* *** * * *
49507502 ACGTCCCAGACGTGGTCTTACATGTAATCACATACCGATGCC-
1 ACGTCCCAGAAGTGGTCTTACACAAAAACACAAATCGATGCCG
49507544 ACTGTCCCAGACAG-GGTCTTACACAAAAACACAAATCGATGCCG
1 AC-GTCCCAGA-AGTGGTCTTACACAAAAACACAAATCGATGCCG
* *
49507588 ACGTCCCAGATGTGGTCTTACACGAAAACACA
1 ACGTCCCAGAAGTGGTCTTACACAAAAACACA
49507620 TATTGGAGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
42 3 0.05
43 57 0.90
44 3 0.05
ACGTcount: A:0.32, C:0.30, G:0.19, T:0.19
Consensus pattern (43 bp):
ACGTCCCAGAAGTGGTCTTACACAAAAACACAAATCGATGCCG
Found at i:49512044 original size:15 final size:15
Alignment explanation
Indices: 49512024--49512058 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
49512014 CCGTGTGGCT
49512024 CACACGGCCTGGCCA
1 CACACGGCCTGGCCA
49512039 CACACGGCCTGGCCA
1 CACACGGCCTGGCCA
49512054 CACAC
1 CACAC
49512059 CTGTGTGCCT
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:0.23, C:0.49, G:0.23, T:0.06
Consensus pattern (15 bp):
CACACGGCCTGGCCA
Found at i:49512055 original size:13 final size:14
Alignment explanation
Indices: 49512019--49512058 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
49512009 CATGGCCGTG
*
49512019 TGGCTCACACGGCC
1 TGGCACACACGGCC
49512033 TGGCCACACACGGCC
1 TGG-CACACACGGCC
49512048 TGGCCACACAC
1 TGG-CACACAC
49512059 CTGTGTGCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 3 0.12
15 21 0.88
ACGTcount: A:0.20, C:0.45, G:0.25, T:0.10
Consensus pattern (14 bp):
TGGCACACACGGCC
Found at i:49512339 original size:17 final size:17
Alignment explanation
Indices: 49512287--49512339 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 17
49512277 TATGGAAACA
* *
49512287 TAATCTTTGAGGATATG
1 TAATCTTAGAAGATATG
*
49512304 CAATCTTAGATATGATATG
1 TAATCTTAGA-A-GATATG
49512323 TAATCTTAGAAGATATG
1 TAATCTTAGAAGATATG
49512340 ATTTTGTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 14 0.47
18 1 0.03
19 15 0.50
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.38
Consensus pattern (17 bp):
TAATCTTAGAAGATATG
Found at i:49512339 original size:22 final size:23
Alignment explanation
Indices: 49512311--49512355 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
49512301 ATGCAATCTT
49512311 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
49512333 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
49512356 GATTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:49512365 original size:22 final size:23
Alignment explanation
Indices: 49512321--49512365 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
49512311 AGATATGATA
*
49512321 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
49512344 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
49512366 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:49512567 original size:19 final size:21
Alignment explanation
Indices: 49512543--49512581 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
49512533 TACTATTTTC
*
49512543 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
49512562 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
49512582 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:49550388 original size:31 final size:31
Alignment explanation
Indices: 49550312--49550390 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
49550302 AAAATCGGCT
*
49550312 CACACGCCCATGTGGTCTACCTGTGTGGGCC
1 CACACGCCCATGTGGTCTACCCGTGTGGGCC
*
49550343 CACACACCCATGTGGTCTACCCGTGTGGGCC
1 CACACGCCCATGTGGTCTACCCGTGTGGGCC
**
49550374 CACACGCCTGTGTGGTC
1 CACACGCCCATGTGGTC
49550391 CACTTGGCCC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.14, C:0.37, G:0.28, T:0.22
Consensus pattern (31 bp):
CACACGCCCATGTGGTCTACCCGTGTGGGCC
Found at i:49560528 original size:223 final size:223
Alignment explanation
Indices: 49560203--49560723 Score: 728
Period size: 223 Copynumber: 2.3 Consensus size: 223
49560193 CTTGTTATGG
* * ** * *
49560203 TCTGCTCTACTGCAACTTCA-GAAAGATAAGACCCGCTATCTTCAGTCTGCTCCACTGTAACTT-
1 TCTGCTCCACTGCAACTTCAGGGAA-ATAAGATTCACTATCTTCAGTCTGCTCCACTGCAACTTC
* * ** * *
49560266 TAGG-GATATAAACTGGT-GTCTTCAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGT
65 AAGGAGATA-AAACT--TAAT-TTCAATCTACTCTACTGCAACTTCAGGGAGATAGGATTATTGG
* * *
49560329 CTGTAATCTGCTCCTCTGCAACTTCAGGGAGATAAGATTTTCCATGATCTGCTCTACTGCAACTT
126 CTGTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATGATCTACTCTACTGCAACTT
* *
49560394 CAGAGAGATAAGATCTGTGATTTATAGCTTTAA
191 CAGAGAGATAAGATATGTAATTTATAGCTTTAA
* * * *
49560427 TCTGTTCCACTGTAGCTTCAGGGAAATAAGATTCGCTATCATT-AGTCTGCTCCACTGCAACTTC
1 TCTGCTCCACTGCAACTTCAGGGAAATAAGATTCACTATC-TTCAGTCTGCTCCACTGCAACTTC
49560491 AAGGAGATAAAACTTAATTTCAATCTACTCTACTGCAACTTCAGGGAGATAGGATTATTGGCTGT
65 AAGGAGATAAAACTTAATTTCAATCTACTCTACTGCAACTTCAGGGAGATAGGATTATTGGCTGT
*
49560556 AATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCCATGATCTACTCTACTGCAACTTCAGA
130 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATGATCTACTCTACTGCAACTTCAGA
49560621 GAGATAAGATATGTAATTTATAGCTTTAA
195 GAGATAAGATATGTAATTTATAGCTTTAA
* *
49560650 TCTGCTCCACTGCAACTTTAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTGCAACTTCC
1 TCTGCTCCACTGCAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTGCAACTTCA
*
49560715 GGGAGATAA
66 AGGAGATAA
49560724 GGTTTGCCAT
Statistics
Matches: 264, Mismatches: 27, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
222 2 0.01
223 196 0.74
224 49 0.19
225 13 0.05
226 4 0.02
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (223 bp):
TCTGCTCCACTGCAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTGCAACTTCA
AGGAGATAAAACTTAATTTCAATCTACTCTACTGCAACTTCAGGGAGATAGGATTATTGGCTGTA
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATGATCTACTCTACTGCAACTTCAGAG
AGATAAGATATGTAATTTATAGCTTTAA
Done.