Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006785.1 Hibiscus syriacus cultivar Beakdansim tig00017195_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 59942
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.34
Found at i:2584 original size:28 final size:29
Alignment explanation
Indices: 2550--2606 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
2540 CTAACTATGA
* *
2550 ATGCATATACATTGAATGAGC-TAAAAAT
1 ATGCATAAACATGGAATGAGCATAAAAAT
*
2578 ATGCATAAACATGGCATGAGCATAAAAAT
1 ATGCATAAACATGGAATGAGCATAAAAAT
2607 GAGCCACGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 18 0.72
29 7 0.28
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.25
Consensus pattern (29 bp):
ATGCATAAACATGGAATGAGCATAAAAAT
Found at i:6244 original size:22 final size:22
Alignment explanation
Indices: 6193--6244 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
6183 TGTAAAGCAG
* *
6193 AGAGAAAATAAGGGAATGAAAA
1 AGAGAAAATAAAGAAATGAAAA
*
6215 AGGGAAAATAAAGAAATGAAAA
1 AGAGAAAATAAAGAAATGAAAA
*
6237 AGATAAAA
1 AGAGAAAA
6245 AGGATTTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.67, C:0.00, G:0.23, T:0.10
Consensus pattern (22 bp):
AGAGAAAATAAAGAAATGAAAA
Found at i:7319 original size:26 final size:26
Alignment explanation
Indices: 7290--7344 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
7280 ATTTAAAATT
7290 ATTAATTATGATCACTAAATTAATAA
1 ATTAATTATGATCACTAAATTAATAA
* * *
7316 ATTATTTATGATCATTAGATTAATAA
1 ATTAATTATGATCACTAAATTAATAA
7342 ATT
1 ATT
7345 TACTTTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.44
Consensus pattern (26 bp):
ATTAATTATGATCACTAAATTAATAA
Found at i:7358 original size:26 final size:25
Alignment explanation
Indices: 7290--7362 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 25
7280 ATTTAAAATT
* *
7290 ATTAATTATGATCACTAAATTAATAA
1 ATTATTTATGATCA-TTAATTAATAA
7316 ATTATTTATGATCATTAGATTAATAA
1 ATTATTTATGATCATTA-ATTAATAA
7342 ATTTACTTTAT-AT-ATTAATTA
1 A-TTA-TTTATGATCATTAATTA
7363 TTATCATTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
25 6 0.14
26 26 0.62
27 5 0.12
28 5 0.12
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (25 bp):
ATTATTTATGATCATTAATTAATAA
Found at i:7521 original size:28 final size:25
Alignment explanation
Indices: 7490--7559 Score: 86
Period size: 26 Copynumber: 2.7 Consensus size: 25
7480 TCAACAAAAG
*
7490 TATATTTTAATTTAAAAATTTTAATA
1 TATATTTTAATTTAAAAAATTTAA-A
* * *
7516 TATATATTAACTAACAAAAATTTAAA
1 TATATTTTAATTTA-AAAAATTTAAA
7542 TATATTTTAATTTAAAAA
1 TATATTTTAATTTAAAAA
7560 GATTAGAAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
25 4 0.11
26 23 0.64
27 9 0.25
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (25 bp):
TATATTTTAATTTAAAAAATTTAAA
Found at i:8293 original size:16 final size:14
Alignment explanation
Indices: 8266--8342 Score: 64
Period size: 14 Copynumber: 5.2 Consensus size: 14
8256 GTTTCATATT
8266 ATAGTCCATATTAA
1 ATAGTCCATATTAA
* *
8280 ATAGATTGCATATTAT
1 ATAG--TCCATATTAA
8296 ATAGTCCATATTAA
1 ATAGTCCATATTAA
* ** *
8310 ATAAAATAAATATTAT
1 AT--AGTCCATATTAA
8326 ATAGTCCATATTAA
1 ATAGTCCATATTAA
8340 ATA
1 ATA
8343 ATAGTCCATA
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 25 0.53
16 22 0.47
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (14 bp):
ATAGTCCATATTAA
Found at i:8301 original size:30 final size:30
Alignment explanation
Indices: 8265--8343 Score: 122
Period size: 30 Copynumber: 2.6 Consensus size: 30
8255 AGTTTCATAT
* * **
8265 TATAGTCCATATTAAATAGATTGCATATTA
1 TATAGTCCATATTAAATAAAATAAATATTA
8295 TATAGTCCATATTAAATAAAATAAATATTA
1 TATAGTCCATATTAAATAAAATAAATATTA
8325 TATAGTCCATATTAAATAA
1 TATAGTCCATATTAAATAA
8344 TAGTCCATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (30 bp):
TATAGTCCATATTAAATAAAATAAATATTA
Found at i:8307 original size:14 final size:14
Alignment explanation
Indices: 8265--8355 Score: 65
Period size: 16 Copynumber: 6.0 Consensus size: 14
8255 AGTTTCATAT
8265 TATAGTCCATATTA
1 TATAGTCCATATTA
* *
8279 AATAGATTGCATATTA
1 TATAG--TCCATATTA
8295 TATAGTCCATATTAAA
1 TATAGTCCATATT--A
* * **
8311 TAAAATAAATATTA
1 TATAGTCCATATTA
8325 TATAGTCCATATTAAA
1 TATAGTCCATATT--A
8341 TAATAGTCCATATTA
1 T-ATAGTCCATATTA
8356 GATATAAGTC
Statistics
Matches: 58, Mismatches: 12, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
14 21 0.36
15 1 0.02
16 24 0.41
17 12 0.21
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (14 bp):
TATAGTCCATATTA
Found at i:8365 original size:17 final size:18
Alignment explanation
Indices: 8323--8367 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
8313 AAATAAATAT
8323 TATATAGTCCATATTAAA
1 TATATAGTCCATATTAAA
*
8341 TA-ATAGTCCATATTAGA
1 TATATAGTCCATATTAAA
8358 TATA-AGTCCA
1 TATATAGTCCA
8368 ATTTGCTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 22 0.88
18 3 0.12
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (18 bp):
TATATAGTCCATATTAAA
Found at i:17310 original size:15 final size:15
Alignment explanation
Indices: 17290--17320 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
17280 TATAACAGGA
17290 TGGAAAGCTTGTCGG
1 TGGAAAGCTTGTCGG
17305 TGGAAAGCTTGTCGG
1 TGGAAAGCTTGTCGG
17320 T
1 T
17321 CACGAATGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.13, G:0.39, T:0.29
Consensus pattern (15 bp):
TGGAAAGCTTGTCGG
Found at i:17889 original size:36 final size:36
Alignment explanation
Indices: 17849--17924 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
17839 TATTATAATA
*
17849 AGGGGAGTTAAAATTAAAATGGGAAGTCATAGAGAT
1 AGGGGAGTTAAAATTAAAATGGGAAGTAATAGAGAT
17885 AGGGGAGTTAAAATTAAAATGGGAAGTAATAGAGAT
1 AGGGGAGTTAAAATTAAAATGGGAAGTAATAGAGAT
17921 AGGG
1 AGGG
17925 ATGGGGGTGA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.45, C:0.01, G:0.33, T:0.21
Consensus pattern (36 bp):
AGGGGAGTTAAAATTAAAATGGGAAGTAATAGAGAT
Found at i:24597 original size:26 final size:26
Alignment explanation
Indices: 24557--24631 Score: 96
Period size: 26 Copynumber: 2.9 Consensus size: 26
24547 TAGAAGGCGC
* *
24557 GCTGACTAGATCTTCTAGAAACTACT
1 GCTGACTCGACCTTCTAGAAACTACT
* **
24583 GCTGACTCGACCTTCTAGAAGCTGTT
1 GCTGACTCGACCTTCTAGAAACTACT
*
24609 GCTGACTCGACCTTCTAAAAACT
1 GCTGACTCGACCTTCTAGAAACT
24632 GCCACGTCAG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (26 bp):
GCTGACTCGACCTTCTAGAAACTACT
Found at i:25495 original size:21 final size:21
Alignment explanation
Indices: 25438--25484 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
25428 TCCGAGCTGA
25438 GTCATTGACCA---TTGATTG
1 GTCATTGACCACCGTTGATTG
25456 GTCATTGACCACCGTTGATTG
1 GTCATTGACCACCGTTGATTG
25477 GTCATTGA
1 GTCATTGA
25485 TCGTCGTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 11 0.42
21 15 0.58
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (21 bp):
GTCATTGACCACCGTTGATTG
Found at i:26383 original size:27 final size:27
Alignment explanation
Indices: 26345--26403 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
26335 TAGTCGAAAG
26345 GAAATGATTGAAATACCCTTTAACTAC
1 GAAATGATTGAAATACCCTTTAACTAC
26372 GAAATGATTGAAATACCCTTTAACTAC
1 GAAATGATTGAAATACCCTTTAACTAC
26399 GAAAT
1 GAAAT
26404 AACTAAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (27 bp):
GAAATGATTGAAATACCCTTTAACTAC
Found at i:26412 original size:27 final size:27
Alignment explanation
Indices: 26355--26444 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 27
26345 GAAATGATTG
* * *
26355 AAATACCCTTTAACTACGAAATGATTG
1 AAATACCCTTTAACTACGAAATAACTA
26382 AAATACCCTTTAACTACGAAATAACTA
1 AAATACCCTTTAACTACGAAATAACTA
* * * *
26409 AAATACCCCTAAAGTATGAAATAACCTA
1 AAATACCCTTTAACTACGAAATAA-CTA
26437 AAATACCC
1 AAATACCC
26445 CCAAGCTCTG
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 44 0.80
28 11 0.20
ACGTcount: A:0.47, C:0.22, G:0.07, T:0.24
Consensus pattern (27 bp):
AAATACCCTTTAACTACGAAATAACTA
Found at i:35819 original size:103 final size:104
Alignment explanation
Indices: 35565--35832 Score: 376
Period size: 104 Copynumber: 2.6 Consensus size: 104
35555 ATGATTGTTG
*
35565 CACAAATTTTAAAAATTGTTTCACTCGAAACAAAAATTCATCTCACTTAAGGTTGTTTTTCTTAA
1 CACAAATTTTAAAAATTGTTTCACTCGAAACAAAAATTCATCTCACTTAAGATTGTTTTTCTTAA
* * * * * *
35630 AATCAATTTTGCCTCACTTGAGACACTTTTCCCTTGAAA
66 AACCAATTTCGCCTCACTTAAGACACATTTACCTCGAAA
* *
35669 CACAAATTTTACAAATTGTTTCACTCAAAACAAAAATTCATCTCACTTAAGATTGTTTTTCTTAA
1 CACAAATTTTAAAAATTGTTTCACTCGAAACAAAAATTCATCTCACTTAAGATTGTTTTTCTTAA
* * *
35734 AACCAATTTCGTCTCGCTTAAGATA-ATTTACCTCGAAA
66 AACCAATTTCGCCTCACTTAAGACACATTTACCTCGAAA
* * * *
35772 CACAAATTTTAGAAATTGTTTCGCTCGAAACAAAAATTCATATCACTTGAGATTGGTTTTT
1 CACAAATTTTAAAAATTGTTTCACTCGAAACAAAAATTCATCTCACTTAAGATT-GTTTTT
35833 TGTCTCGCGT
Statistics
Matches: 146, Mismatches: 17, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
103 59 0.40
104 87 0.60
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (104 bp):
CACAAATTTTAAAAATTGTTTCACTCGAAACAAAAATTCATCTCACTTAAGATTGTTTTTCTTAA
AACCAATTTCGCCTCACTTAAGACACATTTACCTCGAAA
Found at i:36097 original size:103 final size:103
Alignment explanation
Indices: 35834--37727 Score: 1484
Period size: 103 Copynumber: 18.8 Consensus size: 103
35824 TTGGTTTTTT
* * *
35834 GTCTCGCGTGACACAATTTCCCTTGAAACAA-AAATTTTAGAAATTGTTTCACTAGAAACAAAAA
1 GTCTCGCTTGAGACAATTTTCCTTGAAA-AACAAATTTTAGAAATTGTTTCACTAGAAACAAAAA
* * * * *
35898 TTCATCTCTCTTGAAATTGTGTATCTTAAAACTAAATTTC
65 TTCATCTCACTTGAGATTGTTTTTCTTAAAAC-CAATTTC
* * * * * * * * * *
35938 --CTCTCTTGACACAGTTTCCCTTGAAACACAATTTTTAAAAACTGTTTCCCTCGAAACAAAAAT
1 GTCTCGCTTGAGACAATTTTCCTTGAAAAACAAATTTTAGAAATTGTTTCACTAGAAACAAAAAT
* * * *
36001 TCATCCCACTTGAGATTATTTTTCTTAAAATCAATTTT
66 TCATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTC
* * *
36039 GTCTCGCTTGAGACAATTTTCTTTGAAAAACAAATTTTAAAAATTGTTTCACAAGAAACAAAAAA
1 GTCTCGCTTGAGACAATTTTCCTTGAAAAACAAATTTTAGAAATTGTTTCACTAGAAAC-AAAAA
* * *
36104 TT-ATTTCAATTGATATTGTTTTTCTTAAAACCAATTTC
65 TTCATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTC
** ** * * * * * *
36142 GTCTTTCTTGAGGTAGTTTCCCCTGAAATAA-AAATTTTAGAAATTTTTTCACTCG-AA-ATAAA
1 GTCTCGCTTGAGACAATTTTCCTTGAAA-AACAAATTTTAGAAATTGTTTCACTAGAAACAAAAA
* *
36204 TTCATCTCACCTGAGATTGTTTTTGTTAAAACCAATTTC
65 TTCATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTC
* * *
36243 GTCTCGCCTGAGA-ATGTTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCA-AAAC---
1 GTCTCGCTTGAGACA-ATTTT-CCTTGAAAAACAAATTTTAGAAATTGTTTCACT-AGAAACAAA
** *
36303 AATTCAAATCACTTGAGATTGTTTTTCTTAAAATCAATTTC
63 AATTCATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTC
* * * * *
36344 ATCTTGCTAGAGAC-ATTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACAAAAA
1 GTCTCGCTTGAGACAATTTT-CCTTGAAAAACAAATTTTAGAAATTGTTTCACTAGAAACAAAAA
* ** *
36408 TTCATCTCACTTGATATTCATTTTCTTAAAATCAATTTC
65 TTCATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTC
* * ** *
36447 GTCTCGCATT-AGACAATTTCCCTT------TAAA---TCCAAA-T-TTTCAATAGAAACAAAAA
1 GTCTCGC-TTGAGACAATTTTCCTTGAAAAACAAATTTTAGAAATTGTTTCACTAGAAACAAAAA
* *
36500 TTCATCTCATTTGATATTGTTTTTCTTAAAACCAATTTTC
65 TTCATCTCACTTGAGATTGTTTTTCTTAAAACCAA-TTTC
* * * * * * *
36540 -TCTCGCTTGACACAGTTTTCCCTTGAAACACAAATTTTAGGAATTGTTTTACTCGGAA-AAAAA
1 GTCTCGCTTGAGACAATTTT-CCTTGAAAAACAAATTTTAGAAATTGTTTCACTAGAAACAAAAA
* * *
36603 TTCATCTAACTTGATATTG-TTTTCTTAAAACCAATTTT
65 TTCATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTC
* * * * * * * * *
36641 GTCTCGATTGAGATAGTTTCCCTTGAAACACAAAATTTAGAAATTGTTTCTCTTGGAA-AAAAAT
1 GTCTCGCTTGAGACAATTTTCCTTGAAAAACAAATTTTAGAAATTGTTTCACTAGAAACAAAAAT
* *
36705 T-ATTTCACTTGAGATTGTTTTTCTTAAAA-TAATTTC
66 TCATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTC
* * * * *
36741 ATCTTGCTTGAGAC-ATTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAAGAAAAA
1 GTCTCGCTTGAGACAATTTT-CCTTGAAAAACAAATTTTAGAAATTGTTTCACTAGAAACAAAAA
* *
36805 TTCATCTCACTTGAGATTGATTTTCTTAAAATCAATTTC
65 TTCATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTC
* * * * * ** *
36844 GTCTCGCATAAGGCAA-TTTCCCT-ATAAAC-------CCAAA-T-TTTCACTAAAAACAAAAAT
1 GTCTCGCTTGAGACAATTTTCCTTGAAAAACAAATTTTAGAAATTGTTTCACTAGAAACAAAAAT
* **
36898 TCATCTCATTTGAGATTGTTTTTCTTTAAAA--AAAATC
66 TCATCTCACTTGAGATTGTTTTTC-TTAAAACCAATTTC
* * * * * * * *
36935 -TCTCGCTTGACACAGTTTTCCCATGAAACACATATTTTAGGAATTGTTTTACTCG-AA-AAAAA
1 GTCTCGCTTGAGACAATTTT-CCTTGAAAAACAAATTTTAGAAATTGTTTCACTAGAAACAAAAA
* *
36997 TTCATCTCATTTGAGATTGTTTTTCTTAAAACCAATTTA
65 TTCATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTC
* * * ** * *
37036 ATCTCGCTTGAGACAGTTTCCCTTGAACCACAAATTTTAAAAATTGTTTCACTTGAAACAAAAAT
1 GTCTCGCTTGAGACAATTTTCCTTGAAAAACAAATTTTAGAAATTGTTTCACTAGAAACAAAAAT
* * * **
37101 TTATTTCACTTGAGATTATTTTTCTTAAAATAAAATTT-
66 TCATCTCACTTGAGATTGTTTTTCTTAAAA-CCAATTTC
* * * *
37139 ATCTCGCTCGAGACATTTTTCCTTGAAAAACAAATTTTAGAAATTGTTTCAATCA-AAACAAAAA
1 GTCTCGCTTGAGACAATTTTCCTTGAAAAACAAATTTTAGAAATTGTTTCACT-AGAAACAAAAA
* * *
37203 TTCATCTCACTTGAGATTATTTTTCATAAAACCAAATTC
65 TTCATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTC
* * * * * * *
37242 GTCTTG-TCTGAGACATTTTTCTTTTGCAACAA-TAATTTTAGAAATCGTTTTACTCA-AAACAA
1 GTCTCGCT-TGAGACAATTTTC-CTTG-AAAAACAAATTTTAGAAATTGTTTCACT-AGAAACAA
** *
37304 AAATTCAAATCACTTGAGATTGTTTTTCTTAAAACTAATTTC
62 AAATTCATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTC
* *
37346 GCCTTGCTTGAGACAA-TTTCCTTGAAACAA-AAATTTTAGAAATTGTTTCAC-ATGAAACAAAA
1 GTCTCGCTTGAGACAATTTTCCTTGAAA-AACAAATTTTAGAAATTGTTTCACTA-GAAACAAAA
* * * * * ** *
37408 ATTTATCTCATTTTATATT-ATTTTCTTAAAATAAATTTG
64 ATTCATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTC
* * *
37447 GTCTC-ATCTGAGATAA-TTTCCATTG--AAACATAATTTT-GAAATTGTTTCACTCA-AGA-AA
1 GTCTCGCT-TGAGACAATTTTCC-TTGAAAAACA-AATTTTAGAAATTGTTTCACT-AGAAACAA
* *
37505 AAA-T--TCTCACTTGAGATTCTTTTTTCTTAAAACCAATTTA
62 AAATTCATCTCACTTGAGATT-GTTTTTCTTAAAACCAATTTC
* * * * * *
37545 ATCTTGCTTGAG--AATTTTCCCTTGAAACACAAATTTTAGAAA-T-TTTCACTTGAAAGAAAAT
1 GTCTCGCTTGAGACAATTTT-CCTTGAAAAACAAATTTTAGAAATTGTTTCACTAGAAACAAAAA
* *
37606 TTTATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTA
65 TTCATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTC
* * * * * * *
37645 ATCTCGCTTGAAACAGTTTTCCCTT-AAAACACAAATTTTACAAATTATTTGACTCGAAACAAAA
1 GTCTCGCTTGAGACAATTTT-CCTTGAAAA-ACAAATTTTAGAAATTGTTTCACTAGAAACAAAA
37709 ATTCATCTCACTTGAGATT
64 ATTCATCTCACTTGAGATT
37728 TTATTTGTCT
Statistics
Matches: 1440, Mismatches: 258, Indels: 184
0.77 0.14 0.10
Matches are distributed among these distances:
90 10 0.01
91 9 0.01
92 101 0.07
93 20 0.01
94 7 0.00
96 13 0.01
97 18 0.01
98 37 0.03
99 29 0.02
100 192 0.13
101 251 0.17
102 269 0.19
103 343 0.24
104 136 0.09
105 5 0.00
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.38
Consensus pattern (103 bp):
GTCTCGCTTGAGACAATTTTCCTTGAAAAACAAATTTTAGAAATTGTTTCACTAGAAACAAAAAT
TCATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTC
Found at i:36100 original size:295 final size:297
Alignment explanation
Indices: 35568--38540 Score: 779
Period size: 295 Copynumber: 9.9 Consensus size: 297
35558 ATTGTTGCAC
* * * *
35568 AAATTTTAAAAATTGTTTCACTCGAAACAAAAATTCATCTCACTTAAGGTTGTTTTTCTTAAAAT
1 AAATTTTAAAAATTGTTTCACTAGAAACAAAAATTCATCTCACTTAAGATTGTGTATCTTAAAAT
* * * * *
35633 CAATTTTGCCTCACTTGAGACACTTTTCCCTTGAAACACAAATTTTACAAATTGTTTCACTCAAA
66 CAAATTTGCCTCACTTGACACACGTTTCCCTTGAAACACAAATTTTAAAAACTGTTTCACTCAAA
* * *
35698 ACAAAAATTCATCTCACTTAAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCTTAAGATAATTT
131 ACAAAAATTCATCCCACTTAAGATTATTTTTCTTAAAACCAATTTCGTCTCGCTTAAGACAATTT
* * * **
35763 ACCTCGAAACACAAATTTTAGAAATTGTTTCGCTCGAAACAAAAATTCATATCACTTGAGATTGG
196 ACCTCGAAAAACAAATTTTAAAAATTGTTTCACAAGAAACAAAAATTCATATCACTTGAGATTGG
35828 TTTTTTGTCTCGCGTGACACAATTTCCCTTGAAACAA
261 TTTTTTGTCTCGCGTGACACAATTTCCCTTGAAACAA
* *
35865 AAATTTTAGAAATTGTTTCACTAGAAACAAAAATTCATCTCTCTTGAA-ATTGTGTATCTTAAAA
1 AAATTTTAAAAATTGTTTCACTAGAAACAAAAATTCATCTCACTT-AAGATTGTGTATCTTAAAA
* * * *
35929 -CTAAATTT-CCTCTCTTGACACA-GTTTCCCTTGAAACACAATTTTTAAAAACTGTTTCCCTCG
65 TC-AAATTTGCCTCACTTGACACACGTTTCCCTTGAAACACAAATTTTAAAAACTGTTTCACTCA
* * * *
35991 AAACAAAAATTCATCCCACTTGAGATTATTTTTCTTAAAATCAATTTTGTCTCGCTTGAGACAAT
129 AAACAAAAATTCATCCCACTTAAGATTATTTTTCTTAAAACCAATTTCGTCTCGCTTAAGACAAT
* * * * * *
36056 TTTCTTTGAAAAACAAATTTTAAAAATTGTTTCACAAGAAACAAAAAATT-ATTTCAATTGATAT
194 TTACCTCGAAAAACAAATTTTAAAAATTGTTTCACAAGAAAC-AAAAATTCATATCACTTGAGAT
* ** * *** * * *
36120 TGTTTTTCTTAAAACCAATTTCGTCTTTCTTGAGGTAGTTTCCCCTGAAATAA
258 TG---GT-TT--------TTT-GTCTCGCGTGACACAATTTCCCTTGAAACAA
* * * * * * * * *
36173 AAATTTTAGAAATTTTTTCACTCG-AA-ATAAATTCATCTCACCTGAGATTGTTTTTGTTAAAA-
1 AAATTTTAAAAATTGTTTCACTAGAAACAAAAATTCATCTCACTTAAGATTGTGTATCTTAAAAT
* * * * * * * *
36235 CCAATTTCGTCTCGCCTGAGA-ATGTTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCA
66 CAAATTT-GCCTCACTTGACACACG-TTTCCCTTGAAACACAAATTTTAAAAACTGTTTCACTCA
*** * * * * * *
36299 AAAC---AATTCAAATCACTTGAGATTGTTTTTCTTAAAATCAATTTCATCTTGC-TAGAGACAT
129 AAACAAAAATTCATCCCACTTAAGATTATTTTTCTTAAAACCAATTTCGTCTCGCTTA-AGACAA
* * * * ** * *
36360 TTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACAAAAATTCATCTCACTTGATA-
193 TTTACCTCGAAAAACAAATTTTAAAAATTGTTTCACAAGAAACAAAAATTCATATCACTTGAGAT
** * * * *
36424 T--TCATTT-TCT----TAAAATCAATTTCGTCTCGCATTAGAC-A
258 TGGTTTTTTGTCTCGCGTGACA-CAATTTC-CCTTG-A--A-ACAA
** * * * * * * *
36462 ATTTCCCTTTAAATCCAAAT-TTTCAATAGAAACAAAAATTCATCTCATTTGATATTGTTTTTCT
1 AAAT---TTTAAA---AATTGTTTCACTAGAAACAAAAATTCATCTCACTTAAGATTGTGTATCT
* * * ** *
36526 TAAAA-CCAATTTTCTCTCGCTTGACACA-GTTTTCCCTTGAAACACAAATTTTAGGAATTGTTT
60 TAAAATCAAATTTGC-CTCACTTGACACACG-TTTCCCTTGAAACACAAATTTTAAAAACTGTTT
* ** ** * * * * * *
36589 TACTCGGAA-AAAAATTCATCTAACTTGATATT-GTTTTCTTAAAACCAATTTTGTCTCGATTGA
123 CACTCAAAACAAAAATTCATCCCACTTAAGATTATTTTTCTTAAAACCAATTTCGTCTCGCTTAA
* * * * * * * * ** * *
36652 GATAGTTTCCCTTGAAACACAAAATTTAGAAATTGTTTCTCTTGGAA-AAAAATT-ATTTCACTT
188 GACAATTTACCTCGAAAAACAAATTTTAAAAATTGTTTCACAAGAAACAAAAATTCATATCACTT
* * * * * *
36715 GAGATTGTTTTTCTTAAAATAATTTCATCTTGCTTGAGACATTTTCCCTTGAAACAC
253 GAGATTG--GTT-TT----T--TGTC-TC--GCGTGACACAATTTCCCTTGAAACAA
* * * * *
36772 AAATTTTAGAAATTGTTTCACTCGAAAGAAAAATTCATCTCACTTGAGATTGAT-TTTCTTAAAA
1 AAATTTTAAAAATTGTTTCACTAGAAACAAAAATTCATCTCACTTAAGATTG-TGTATCTTAAAA
* * * * ** * * *
36836 TC-AATTTCGTCTCGCATAAGGCA-ATTTCCCTAT-AAAC-C--------CAAA-T-TTTCACTA
65 TCAAATTT-GCCTCACTTGACACACGTTTCCCT-TGAAACACAAATTTTAAAAACTGTTTCACTC
* * * * ** * *
36887 AAAACAAAAATTCATCTCATTTGAGATTGTTTTTCTTTAAAA--AAAATC-TCTCGCTTGACACA
128 AAAACAAAAATTCATCCCACTTAAGATTATTTTTC-TTAAAACCAATTTCGTCTCGCTTAAGACA
* * * * ** * ** * *
36949 GTTTTCC-CATGAAACACATATTTTAGGAATTGTTTTACTCG-AA-AAAAATTCATCTCATTTGA
192 ATTTACCTC--GAAAAACAAATTTTAAAAATTGTTTCACAAGAAACAAAAATTCATATCACTTGA
* * * * * * *
37011 GATTGTTTTTCTTAAAACCAATTTAATCTCGCTTGAGACAGTTTCCCTTGAACCAC
255 GATTG---GT-TT--------TTT-GTCTCGCGTGACACAATTTCCCTTGAAACAA
* * * * * * *
37067 AAATTTTAAAAATTGTTTCACTTGAAACAAAAATTTATTTCACTTGAGATTATTTTTCTTAAAAT
1 AAATTTTAAAAATTGTTTCACTAGAAACAAAAATTCATCTCACTTAAGATTGTGTATCTTAAAAT
* ** * * * * * * * * *
37132 AAAATTTATCTCGCTCGAGACA-TTTTTCCTTGAAAAACAAATTTTAGAAATTGTTTCAATCAAA
66 CAAATTTGCCTCACTTGACACACGTTTCCCTTGAAACACAAATTTTAAAAACTGTTTCACTCAAA
* * * * * * *
37196 ACAAAAATTCATCTCACTTGAGATTATTTTTCATAAAACCAAATTCGTCTTG-TCTGAGACATTT
131 ACAAAAATTCATCCCACTTAAGATTATTTTTCTTAAAACCAATTTCGTCTCGCT-TAAGACAATT
* * * * * * * * * *
37260 TTCTTTTGCAACAA-TAATTTTAGAAATCGTTTTACTCA-AAACAAAAATTCAAATCACTTGAGA
195 TAC-CTCG-AAAAACAAATTTTAAAAATTGTTTCAC-AAGAAACAAAAATTCATATCACTTGAGA
* * * *
37323 TTGTTTTTCTTAAAACTAATTTCGCCTTGCTTGAGACAATTT-CCTTGAAACAA
257 TTG-GTTT-TT-----T-GTCTCG-C--G--TGACACAATTTCCCTTGAAACAA
* * * * * * *
37376 AAATTTTAGAAATTGTTTCAC-ATGAAACAAAAATTTATCTCATTTTATATTAT-TTTCTTAAAA
1 AAATTTTAAAAATTGTTTCACTA-GAAACAAAAATTCATCTCACTTAAGATTGTGTATCTTAAAA
* * * * * * * *
37439 T-AAATTTGGTCTCA-TCTGAGATA-ATTTCCATTGAAACA-TAATTTT-GAAATTGTTTCACTC
65 TCAAATTT-GCCTCACT-TGACACACGTTTCCCTTGAAACACAAATTTTAAAAACTGTTTCACTC
* * * ** * *
37499 AAGA-AAAAATTC-T--CACTTGAGATTCTTTTTTCTTAAAACCAATTTAATCTTGCTTGAGA-A
128 AAAACAAAAATTCATCCCACTTAAGATT-ATTTTTCTTAAAACCAATTTCGTCTCGCTTAAGACA
* * * * * ** * * * *
37559 TTTTCCCTTGAAACACAAATTTTAGAAA-T-TTTCACTTGAAAGAAAATTTTATCTCACTTGAGA
192 ATTTACCTCGAAAAACAAATTTTAAAAATTGTTTCACAAGAAACAAAAATTCATATCACTTGAGA
* * * * * * *
37622 TTGTTTTTCTTAAAACCAATTTAATCTCGCTTGAAACAGTTTTCCCTTAAAACAC
257 TTG---GT-TT--------TTT-GTCTCGCGTGACACA-ATTTCCCTTGAAACAA
* * * *
37677 AAATTTTACAAATTATTTGACTCGAAACAAAAATTCATCTCACTT--GA----G-AT-TT----T
1 AAATTTTAAAAATTGTTTCACTAGAAACAAAAATTCATCTCACTTAAGATTGTGTATCTTAAAAT
* * * * * ** *
37730 ---ATTTGTCTCGCATGACACA-ATTTCCCTTGAAACGCAAATTTTAGTAATTGTTTCACT-AGA
66 CAAATTTGCCTCACTTGACACACGTTTCCCTTGAAACACAAATTTTAAAAACTGTTTCACTCA-A
* * * * * *
37790 AAC--AAATTTATCTCACTTGAA-ATTATTTTT-TT-AAACCAATTTCCTC-CTGCATGACACAT
130 AACAAAAATTCATCCCACTT-AAGATTATTTTTCTTAAAACCAATTTCGTCTC-GCTTAAGACA-
* * * * * **
37849 TTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACAAAAATTCAT-TCCACTTGAG
192 ATTTACCTCGAAAAACAAATTTTAAAAATTGTTTCACAAGAAACAAAAATTCATAT-CACTTGAG
** * * * *
37913 ATTATTTTTCCTAAAACCAATTTTGTCTCGCATGAGACAGTTTCCCTTGAAATAA
256 ---ATTGGT--T--------TTTTGTCTCGCGTGACACAATTTCCCTTGAAACAA
* * * * * * * *
37968 AAATTCTAGAAATTGTTTCATTTGAAA-AGAAAATTCATCTAACTTGAGATTGTTTTTCTTAAAA
1 AAATTTTAAAAATTGTTTCACTAGAAACA-AAAATTCATCTCACTTAAGATTGTGTATCTTAAAA
* * * * ** * * * *
38032 -CCAATTTCGTCTCGCCTGTGA-ATGTTTTCCCTTGAAACACAAATTTTATAAATTGTTTCATTC
65 TCAAATTT-GCCTCACTTGACACACG-TTTCCCTTGAAACACAAATTTTAAAAACTGTTTCACTC
* *** * ** *
38095 GGAAA-AAAAA-TCAAATCACTTGAGATTGGTTTTCTTAAAACCAATTTCGTCTCGCTTGAGACA
128 -AAAACAAAAATTCATCCCACTTAAGATTATTTTTCTTAAAACCAATTTCGTCTCGCTTAAGACA
** * * * ** *
38158 GCTTACCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACAAAAATTCATCTCACTTGAGA
192 ATTTACCTCGAAAAACAAATTTTAAAAATTGTTTCACAAGAAACAAAAATTCATATCACTTGAG-
** * * * *
38223 ATGTTTTTCTTAAAACCAATTTCGTCTCACTTGAGACAATGTTCCCTTGAAACAC
256 A--TTGGT-TT--------TTT-GTCTCGCGTGACACAAT-TTCCCTTGAAACAA
* * * * *
38278 AAATTTTAGAAATTGTTTCACTCGAAACAAAAATTTATCTCACTTGAGATTGT-TTTCTTAAAA-
1 AAATTTTAAAAATTGTTTCACTAGAAACAAAAATTCATCTCACTTAAGATTGTGTATCTTAAAAT
* * * * * ** * *
38341 CCAATTT-CATCTTACTTGAGACACTTTTCCCTTGAAACACAAATTTTACAATTTGTTTTACTCG
66 CAAATTTGC--CTCACTTGACACACGTTTCCCTTGAAACACAAATTTTAAAAACTGTTTCACTCA
* **** * * * * * * * * *
38405 AAATAAAAATTCAAATTACTTGAGTTTGTGTTTCTTAAAACCAATTTTGTGTCACTTGAGACAGT
129 AAACAAAAATTCATCCCACTTAAGATTATTTTTCTTAAAACCAATTTCGTCTCGCTTAAGACAAT
* * * * *** * * *
38470 TTCCCTTGAAACAA-ATATTTTAGAAATTGTTTCATGTGAAACAAAAATTTATCTTACTTGAGAT
194 TTACCTCGAAA-AACAAATTTTAAAAATTGTTTCACAAGAAACAAAAATTCATATCACTTGAGAT
38534 T-GTTTTT
258 TGGTTTTT
38541 CTTAAAACCA
Statistics
Matches: 2087, Mismatches: 374, Indels: 430
0.72 0.13 0.15
Matches are distributed among these distances:
284 2 0.00
285 5 0.00
286 2 0.00
287 24 0.01
288 37 0.02
289 23 0.01
290 39 0.02
291 58 0.03
292 47 0.02
293 41 0.02
294 74 0.04
295 271 0.13
296 128 0.06
297 129 0.06
298 23 0.01
299 41 0.02
300 10 0.00
301 66 0.03
302 19 0.01
303 30 0.01
304 35 0.02
305 186 0.09
306 99 0.05
307 78 0.04
308 178 0.09
309 212 0.10
310 214 0.10
311 3 0.00
312 1 0.00
313 3 0.00
314 6 0.00
315 3 0.00
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.38
Consensus pattern (297 bp):
AAATTTTAAAAATTGTTTCACTAGAAACAAAAATTCATCTCACTTAAGATTGTGTATCTTAAAAT
CAAATTTGCCTCACTTGACACACGTTTCCCTTGAAACACAAATTTTAAAAACTGTTTCACTCAAA
ACAAAAATTCATCCCACTTAAGATTATTTTTCTTAAAACCAATTTCGTCTCGCTTAAGACAATTT
ACCTCGAAAAACAAATTTTAAAAATTGTTTCACAAGAAACAAAAATTCATATCACTTGAGATTGG
TTTTTTGTCTCGCGTGACACAATTTCCCTTGAAACAA
Found at i:37256 original size:206 final size:206
Alignment explanation
Indices: 36879--42168 Score: 5083
Period size: 206 Copynumber: 26.0 Consensus size: 206
36869 AAACCCAAAT
** * * **
36879 TTTCACTAAAAACAAAAATTCATCTCATTTGAGATTGTTTTTCTTTAAAA--AAAATC-TCTCGC
1 TTTCACTCGAAACAAAAATTTATCTCACTTGAGATTGTTTTTC-TTAAAACCAATTTCGTCTCGC
* * * * *
36941 TTGACACAGTTTTCCCATGAAACACATATTTTAGGAATTGTTTTACTCG-AA-AAAAATTCATCT
65 TTGAGACAG-TTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACAAAAATTCATCT
* ** *
37004 CATTTGAGATTGTTTTTCTTAAAACCAATTTAATCTCGCTTGAGACAGTTTCCCTTGAACCACAA
129 CACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACACAA
*
37069 ATTTTAAAAATTG
194 ATTTTAGAAATTG
* * * ** *
37082 TTTCACTTGAAACAAAAATTTATTTCACTTGAGATTATTTTTCTTAAAATAAAATTT-ATCTCGC
1 TTTCACTCGAAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAA-CCAATTTCGTCTCGC
* * * * * *
37146 TCGAGACATTTTTCCTTGAAAAACAAATTTTAGAAATTGTTTCAATCAAAACAAAAATTCATCTC
65 TTGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACAAAAATTCATCTC
* * * * * ** *
37211 ACTTGAGATTATTTTTCATAAAACCAAATTCGTCTTG-TCTGAGACATTTTTCTTTTGCAACA-A
130 ACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCT-TGAGACA-GTTTCCCTTGAAACACA
*
37274 TAATTTTAGAAATCG
193 -AATTTTAGAAATTG
* * * ** * * *
37289 TTTTACTCAAAACAAAAATTCAAATCACTTGAGATTGTTTTTCTTAAAACTAATTTCGCCTTGCT
1 TTTCACTCGAAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCT
* * *
37354 TGAGACAATTT-CCTTGAAACAAAAATTTTAGAAATTGTTTCACAT-GAAACAAAAATTTATCTC
66 TGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCAC-TCGAAACAAAAATTCATCTC
* * * * ** * * * * * *
37417 ATTTTATATT-ATTTTCTTAAAATAAATTTGGTCTC-ATCTGAGATAATTTCCATTGAAACA-TA
130 ACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCT-TGAGACAGTTTCCCTTGAAACACAA
37479 ATTTT-GAAATTG
194 ATTTTAGAAATTG
* ** *
37491 TTTCACTC-AAGA-AAAAA--T-TCTCACTTGAGATTCTTTTTTCTTAAAACCAATTTAATCTTG
1 TTTCACTCGAA-ACAAAAATTTATCTCACTTGAGATT-GTTTTTCTTAAAACCAATTTCGTCTCG
* * * * *
37551 CTTGAGA-ATTTTCCCTTGAAACACAAATTTTAGAAA-T-TTTCACTTGAAAGAAAATTTTATCT
64 CTTGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACAAAAATTCATCT
** * *
37613 CACTTGAGATTGTTTTTCTTAAAACCAATTTAATCTCGCTTGAAACAGTTTTCCCTTAAAACACA
129 CACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGACAG-TTTCCCTTGAAACACA
* *
37678 AATTTTACAAATTA
193 AATTTTAGAAATTG
* * *
37692 TTTGACTCGAAACAAAAATTCATCTCACTTGAGA------TT-TT-------ATTT-GTCTCGCA
1 TTTCACTCGAAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCT
* * * * * *
37742 TGACACAATTTCCCTTGAAACGCAAATTTTAGTAATTGTTTCACTAGAAAC--AAATTTATCTCA
66 TGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACAAAAATTCATCTCA
* * * * * *
37805 CTTGAAATTATTTTT-TT-AAACCAATTTCCTC-CTGCATGACACATTTTTCCCTTGAAACACAA
131 CTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTC-GCTTGAGACA-GTTTCCCTTGAAACACAA
37867 ATTTTAGAAATTG
194 ATTTTAGAAATTG
* * * *
37880 TTTCACTCGAAACAAAAATTCAT-TCCACTTGAGATTATTTTTCCTAAAACCAATTTTGTCTCGC
1 TTTCACTCGAAACAAAAATTTATCT-CACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGC
* * * * * *
37944 ATGAGACAGTTTCCCTTGAAATAAAAATTCTAGAAATTGTTTCATTTGAAA-AGAAAATTCATCT
65 TTGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACA-AAAATTCATCT
* * *
38008 AACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCCTGTGA-ATGTTTTCCCTTGAAACAC
129 CACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGACA-G-TTTCCCTTGAAACAC
*
38072 AAATTTTATAAATTG
192 AAATTTTAGAAATTG
* * ** *
38087 TTTCATTCGGAAA-AAAAA-TCAAATCACTTGAGATTGGTTTTCTTAAAACCAATTTCGTCTCGC
1 TTTCACTC-GAAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGC
* *
38150 TTGAGACAGCTTACCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACAAAAATTCATCTC
65 TTGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACAAAAATTCATCTC
* * *
38215 ACTTGAGAATGTTTTTCTTAAAACCAATTTCGTCTCACTTGAGACAATGTTCCCTTGAAACACAA
130 ACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGACAGT-TTCCCTTGAAACACAA
38280 ATTTTAGAAATTG
194 ATTTTAGAAATTG
* **
38293 TTTCACTCGAAACAAAAATTTATCTCACTTGAGATTG-TTTTCTTAAAACCAATTTCATCTTACT
1 TTTCACTCGAAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCT
* * * * * ** *
38357 TGAGACACTTTTCCCTTGAAACACAAATTTTACAATTTGTTTTACTCGAAATAAAAATTCAAATT
66 TGAGACA-GTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACAAAAATTCATCTC
* * * * *
38422 ACTTGAGTTTGTGTTTCTTAAAACCAATTTTGTGTCACTTGAGACAGTTTCCCTTGAAACA-AAT
130 ACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACACAA-
38486 ATTTTAGAAATTG
194 ATTTTAGAAATTG
* * * *
38499 TTTCA-TGTGAAACAAAAATTTATCTTACTTGAGATTGTTTTTCTTAAAACCAATTTTGTCTCAC
1 TTTCACT-CGAAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGC
* * * * ** *
38563 TTAAGACTGTTTCCCTTGAAATACAAATTCTAGAAATTGTTTCACAAGAAACAAAAAATCATC-C
65 TTGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACAAAAATTCATCTC
* * *
38627 ACTTGAGATTGTTTTTCTT-AAACCAATTTCGTCTAGCCTGAGA-ATGTTTTCCTTTGAAACACA
130 ACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGACA-G-TTTCCCTTGAAACACA
*
38690 AA-TTTAGATATTAG
193 AATTTTAGAAATT-G
** * *
38704 -TTCACTCG-----AAAATTTCAAATCACTTGATATTGTTTTTCTT-AAACCAATTTTGTCAT-G
1 TTTCACTCGAAACAAAAATTT-ATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTCGTC-TCG
* * * * * *
38761 CTTGAGTCAGTTTCCCTTGAAACTCAAATTTTAGAAATT-ATTCAATCG-AA-AAAAATTGATGT
64 CTTGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACAAAAATTCATCT
* *
38823 CACTTGAGATTGTTTTTCTTGAAACCAAATTT-ATCTCGCTTGAGACAGTTTCCCTTGAAACACA
129 CACTTGAGATTGTTTTTCTTAAAACC-AATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACACA
*
38887 AATTTTAGAAATAG
193 AATTTTAGAAATTG
** * *
38901 TTTCACTCGAAACAAAAA-AAATCT--CTTGATG-TTG-TTTTCTTAAAATCAATTTTGTCTCGC
1 TTTCACTCGAAACAAAAATTTATCTCACTTGA-GATTGTTTTTCTTAAAACCAATTTCGTCTCGC
* * *
38961 TTGAGATAGTTTCCTTTGAAATACAAATTTTAGAAATTGTTTCACTCGAAACAAAAATTCATCTC
65 TTGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACAAAAATTCATCTC
* * * *
39026 ACTTGAGATT-TTTTT-TTAAAAACCAATTTCGTCTTGCTTTAGACAATTTTCCCTTGATACACA
130 ACTTGAGATTGTTTTTCTT-AAAACCAATTTCGTCTCGCTTGAGAC-AGTTTCCCTTGAAACACA
* * *
39089 AATATTACAAAATG
193 AATTTTAGAAATTG
* * ** * * *
39103 TTTAACTCGAAACAAAAATTAAAATCACTTGAGATTGTTTTTCTTAAAAAGCAATATCGTCTTGC
1 TTTCACTCGAAACAAAAATTTATCTCACTTGAGATTGTTTTTCTT-AAAACCAATTTCGTCTCGC
* * * * * * * *
39168 TTCAGACAGTTTCTCTTGACACACAAATTTTAGAAATTATTTC-GTACGAAACAAAATTTTATCC
65 TTGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACT-CGAAACAAAAATTCATCT
* * * * * * * *
39232 CAATTGATATTATTTTTCTTAAAATCAATTTCGTCTCGCTTAAGACAATTTCCCTTGAAATAGAA
129 CACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACACAA
39297 ATTTT-GAAATTG
194 ATTTTAGAAATTG
* * * **
39309 TTTCAC-CAGAAA-AAAAATAT-TCTCACTTGATATTCTTTTTCTTAAAACCAATTTAATCTCGC
1 TTTCACTC-GAAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGC
* * * *
39371 TTGAGACAGTTTCCCTAGAAACATAAATTTTAAAAATTGTTTCACTCGAAACAAAAATTTATCTC
65 TTGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACAAAAATTCATCTC
* * * * **
39436 ACTTGAGATT-TTTTTCTTAAAACCAATTTCTTATCGCTTGAGCCAATTTTCCCTTGAAACACGT
130 ACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGAC-AGTTTCCCTTGAAACACAA
* *
39500 ATTTTACAAATTA
194 ATTTTAGAAATTG
* * * *
39513 TTTCACTCGAAACGAAAACTTATCTCACTTGAGATTGTTCTTCTTAAAACCAATTTTGTCTCGCT
1 TTTCACTCGAAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCT
* * ** * *
39578 TGAGACAGTTTCCCTTGAAATACAAATTCTAG-AATT-TTTTTCTCAAAACGAAAA-TCAATCTC
66 TGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACAAAAATTC-ATCTC
* * * * *
39640 AGTTGAGATT-TTTTTCTTAAAATCAATTTCGTCTAGCATGTGA-ATGTTTTCCCTTGAAACACA
130 ACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGACA-G-TTTCCCTTGAAACACA
39703 AATTTTAGAAATTG
193 AATTTTAGAAATTG
* * * **
39717 TTTAACTC-AAA-AACAATTAAAATCACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCAT-GC
1 TTTCACTCGAAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTCGTC-TCGC
* * * * * *
39779 TTTAGACAATTTCCCTTGAAACACTAATTTTAGAAATTGTTTCACTCAAAATAAAAATTCATATC
65 TTGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACAAAAATTCATCTC
* * * * * * *
39844 ACTTGATATTGTTTTTCTTAAAACCAATTTCATCTTGTTTGAGACATTTTCCCTTTAAAAACAAA
130 ACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACACAAA
39909 TTTTAGAAATTG
195 TTTTAGAAATTG
* * * * *
39921 TTTCACAT-GAAATAAAAATATATCTCA-TGTGAGATTATTTTTCTTAAAACAAATTTCATCTCG
1 TTTCAC-TCGAAACAAAAATTTATCTCACT-TGAGATTGTTTTTCTTAAAACCAATTTCGTCTCG
* * ** * ** **
39984 CTTGATACAGTTTTCCTTGAATTAGAAATTTT-GAAATTGTTTCACTC--AGGAAAAATTTGTCT
64 CTTGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACAAAAATTCATCT
* * * * * * *
40046 AACGTGAGATTCTTTTTCTTAAAACCAATTTCTTCTCGTTTGAGACAGTTTTCCATTTAAACACA
129 CACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGACAG-TTTCCCTTGAAACACA
*
40111 AATTTTAGAAATTA
193 AATTTTAGAAATTG
* * *
40125 TTTCAATCGAAACAAAAATTCATCTCACTTGAGATTGTTTTTTCTTAAAACCAATTTCGTCTTGC
1 TTTCACTCGAAACAAAAATTTATCTCACTTGAGATTG-TTTTTCTTAAAACCAATTTCGTCTCGC
* * * * * * *
40190 CTGAGATAGTTTTCCCTTGAAACTCAAATTTTACAAATTGTTTCACTTGAAGAAAAAAAATTAAT
65 TTGAGACAG-TTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCG-A-AACAAAAATTCAT
* * * * * *
40255 CTCATTTGAGATTGTTTTTCTTAAAATCAATTTCATCTCGCTTGAGACAATTTCCCATGAAACAA
127 CTCACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACAC
*
40320 AAATTTTTGAAATTG
192 AAATTTTAGAAATTG
* * * * * *
40335 TATCACTCGAAATAAAAATTAATCTCACTTGAGAATGTTTTTCTTAAAACTAATCTCGTCTCGCT
1 TTTCACTCGAAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCT
* * * * * *
40400 TGAGACAATTTTCCCTTGAAACACAACTTCTAGAAATT-ATTCATTCGAAAGAAAAATTCATCTC
66 TGAGAC-AGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACAAAAATTCATCTC
* * * *
40464 ACTTAAGATTGTTTTTCTTAAAACCAATTTCATCTCGCTTAAGACAAATTT-CCTTGAAACACAA
130 ACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGAC-AGTTTCCCTTGAAACACAA
40528 ATTTTAGAAATTG
194 ATTTTAGAAATTG
* * * * * *
40541 TTTCACTAGAAACAAAAATTCATCTCAATTGAGATTATTTTTCTTAAAACTAATTTTC-TCTAGC
1 TTTCACTCGAAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACCAA-TTTCGTCTCGC
* *
40605 TTGACACAGTTTTCCCTTGAAAAACAAATTTTAGAAA---TTT-ACTCGAAACAAAAATTCATCT
65 TTGAGACAG-TTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACAAAAATTCATCT
* * * * * * * * * *
40666 TACATGATATGGTTTTCCTTCAAATCAATTTCGTCTCACTTGAGATAGTTTCCCTTAAAACACAA
129 CACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACACAA
40731 ATTTTAGAAATTG
194 ATTTTAGAAATTG
* * * * * * *
40744 CTTCACTAGAAACTAAAATATATTTCACCTGAGATTGTTTTTCTTAAAACCAATTTCTTCTCGCT
1 TTTCACTCGAAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCT
* * * * * * * * *
40809 TGAGACAGTTTTCCTTGAAAAACAAAATTTAGAAATTATTCCACTTGAAATAAAATTTCTTCTCA
66 TGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACAAAAATTCATCTCA
* * * * * *** * *
40874 CTTGAGATTGTTTTTCTTAAAACCAAATTCGTCTTGCCTAAGACAATTTTTTTTTAAAACAAAAA
131 CTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGAC-AGTTTCCCTTGAAACACAAA
**
40939 AATTAGAAATTG
195 TTTTAGAAATTG
* * * *
40951 TTTCACTCGAAAAAAAAATATTCAAAC-CACTTGAGACTGTTTTTCTTAAAACCAATTTCTTCTC
1 TTTCACTCGAAACAAAAAT-TT--ATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTC
* * * *
41015 GCTTGAGACAGTTTCCCTTCAAACAAAAAATTTAGAAATTGTTTCACAT-GAAACAAAAATTTAT
63 GCTTGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCAC-TCGAAACAAAAATTCAT
* * * * * * * * *
41079 CTCACTTAATATT-ATTTTCTTAATATCAATTTCGTCTCTCTTGATATAGTTTCCCTCGAAA-A-
127 CTCACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACAC
*
41141 AAA-TTT-GAAAGTG
192 AAATTTTAGAAATTG
* * * *
41154 TTTCACTCAGGAA-AAAAA-TTA--TCACTTGAGATTCTTTTTCTTAAAACCATTTTCATCTCGC
1 TTTCACTC-GAAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGC
* *
41215 TTGAGACAGTTTCCCTTGAAACACAAA-TTTAGAAATTGTTTCACTCTAAACAAAATTTCATCTC
65 TTGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACAAAAATTCATCTC
* * * *
41279 ACATGAGATTGTTCTTCTTAAAACCAATTTCTTCTCGCCTGAGACAGTTTTCCCTTGAAACACAA
130 ACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGACAG-TTTCCCTTGAAACACAA
*
41344 ATTTTACAAATTG
194 ATTTTAGAAATTG
* * * * * * *
41357 TTTTACTCGAAACAAAAATTCATCTCACTTGATATTATTCTTCTTAAAACCAATTCCGTCTTGCT
1 TTTCACTCGAAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCT
* * *
41422 TAAGACAATTTCCCTTGAAACA-AAATTTTAGAAATTGTTTCACTCGAAATAAAAATTCATCTCA
66 TGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACAAAAATTCATCTCA
* * * * * * * *
41486 CTTGAG---G-TTGTGTT--------TTT-GTGTCGCATGACACAATTTACTTTGAAACACAAAT
131 CTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACACAAAT
41538 TTTAGAAATTG
196 TTTAGAAATTG
* ** * * * *
41549 TTTCACTAGAAATGAAAATTCATCTCACTTGAAATCG-TTTTCTTAAAACCAATTTCCTCTCGCT
1 TTTCACTCGAAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCT
** * * * *
41613 TGTTACACTTTTCCCTTGAAATACAAATTTTTGAAATTGTTTCACTCGAAACAAAAATTCA--TG
66 TGAGACA-GTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACAAAAATTCATCTC
* * * * *
41676 ACTTGAGTTTGTTTTTCTTAAAACCAATTTCATCTTGCTTGAGATAATTTCCCTTGAAACACAAA
130 ACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACACAAA
*
41741 TTTCAGAAATTG
195 TTTTAGAAATTG
* * * *
41753 TTTCACTCAAAACAAAAATTTATTTCACTTGAGATTTTTTTTCTTAAAACTAATTTCGTCTCGCT
1 TTTCACTCGAAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCT
* * * *
41818 TGAGGCAGTTTCCCTTGAAATACAAATTCTAGAAATTGTTTCACTCGAAACGAAAATTCATCTCA
66 TGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACAAAAATTCATCTCA
* * * **
41883 CTTTG-GATTGTTTTTCTTAAAACTAATTTTGTATCGCCGGAGA-ATGTTTTCCCTTGAAACACA
131 C-TTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGACA-G-TTTCCCTTGAAACACA
41946 AATTTTAGAAATTG
193 AATTTTAGAAATTG
* * * ** * **
41960 TTTAAGTC-AAA-AAAAA-TCAAATCACTTGAGATTGTTTTTCTTAAAACCAATTTTGTCTTTCT
1 TTTCACTCGAAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCT
* * *
42022 AGAGACAGTTTTCCTTGAAACACAAATTTTAGAAATTGTTTCACGT-GAAACAAAAATAT-ATTT
66 TGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCAC-TCGAAACAAAAAT-TCATCT
* * * * *
42085 CACTTGAGATTATTTTTCTTAATATCAATTTTGTCTCGCTTGAGACAGTTTCCCTTGAAACATAA
129 CACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACACAA
*
42150 ATTCT-GAAATTG
194 ATTTTAGAAATTG
42162 TTTCACT
1 TTTCACT
42169 GTAACACCCC
Statistics
Matches: 4166, Mismatches: 735, Indels: 373
0.79 0.14 0.07
Matches are distributed among these distances:
187 2 0.00
188 78 0.02
189 11 0.00
190 54 0.01
191 36 0.01
192 81 0.02
193 46 0.01
194 6 0.00
195 6 0.00
196 10 0.00
197 110 0.03
198 176 0.04
199 192 0.05
200 42 0.01
201 50 0.01
202 249 0.06
203 453 0.11
204 561 0.13
205 273 0.07
206 926 0.22
207 476 0.11
208 64 0.02
209 154 0.04
210 59 0.01
211 51 0.01
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.38
Consensus pattern (206 bp):
TTTCACTCGAAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCT
TGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACAAAAATTCATCTCA
CTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACACAAAT
TTTAGAAATTG
Found at i:37605 original size:27 final size:28
Alignment explanation
Indices: 37557--37609 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
37547 CTTGCTTGAG
*
37557 AATTTTCCCTTGAAACACAAATTTTAGA
1 AATTTTCACTTGAAACACAAATTTTAGA
*
37585 AATTTTCACTTGAAAGA-AAATTTTA
1 AATTTTCACTTGAAACACAAATTTTA
37610 TCTCACTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.38
Consensus pattern (28 bp):
AATTTTCACTTGAAACACAAATTTTAGA
Found at i:37981 original size:103 final size:103
Alignment explanation
Indices: 37730--41501 Score: 3814
Period size: 103 Copynumber: 36.9 Consensus size: 103
37720 TTGAGATTTT
* * * * * *
37730 ATTT-GTCTCGCATGACACAATTTCCCTTGAAACGCAAATTTTAGTAATTGTTTCACTAGAAAC-
1 ATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACA
* * *
37793 -AAATTTATCTCACTTGAAATTATTTTT-TT-AAACCA
66 AAAATTCATCTCACTTGAGATTGTTTTTCTTAAAACCA
* * * *
37828 ATTTCCTC-CTGCATGACACATTTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAA
1 ATTTCGTCTC-GCTTGAGACA-GTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAA
* *
37892 CAAAAATTCAT-TCCACTTGAGATTATTTTTCCTAAAACCA
64 CAAAAATTCATCT-CACTTGAGATTGTTTTTCTTAAAACCA
* * * * * * *
37932 ATTTTGTCTCGCATGAGACAGTTTCCCTTGAAATAAAAATTCTAGAAATTGTTTCATTTGAAA-A
1 ATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACA
*
37996 GAAAATTCATCTAACTTGAGATTGTTTTTCTTAAAACCA
66 -AAAATTCATCTCACTTGAGATTGTTTTTCTTAAAACCA
* * * *
38035 ATTTCGTCTCGCCTGTGA-ATGTTTTCCCTTGAAACACAAATTTTATAAATTGTTTCATTCGGAA
1 ATTTCGTCTCGCTTGAGACA-G-TTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTC-GAA
** *
38099 A-AAAAA-TCAAATCACTTGAGATTGGTTTTCTTAAAACCA
63 ACAAAAATTCATCTCACTTGAGATTGTTTTTCTTAAAACCA
* *
38138 ATTTCGTCTCGCTTGAGACAGCTTACCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACA
1 ATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACA
*
38203 AAAATTCATCTCACTTGAGAATGTTTTTCTTAAAACCA
66 AAAATTCATCTCACTTGAGATTGTTTTTCTTAAAACCA
* *
38241 ATTTCGTCTCACTTGAGACAATGTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAAC
1 ATTTCGTCTCGCTTGAGACAGT-TTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAAC
*
38306 AAAAATTTATCTCACTTGAGATTG-TTTTCTTAAAACCA
65 AAAAATTCATCTCACTTGAGATTGTTTTTCTTAAAACCA
* ** * * * * *
38344 ATTTCATCTTACTTGAGACACTTTTCCCTTGAAACACAAATTTTACAATTTGTTTTACTCGAAAT
1 ATTTCGTCTCGCTTGAGACA-GTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAAC
** * * *
38409 AAAAATTCAAATTACTTGAGTTTGTGTTTCTTAAAACCA
65 AAAAATTCATCTCACTTGAGATTGTTTTTCTTAAAACCA
* * * *
38448 ATTTTGTGTCACTTGAGACAGTTTCCCTTGAAACA-AATATTTTAGAAATTGTTTCA-TGTGAAA
1 ATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACACAA-ATTTTAGAAATTGTTTCACT-CGAAA
* *
38511 CAAAAATTTATCTTACTTGAGATTGTTTTTCTTAAAACCA
64 CAAAAATTCATCTCACTTGAGATTGTTTTTCTTAAAACCA
* * * * * * **
38551 ATTTTGTCTCACTTAAGACTGTTTCCCTTGAAATACAAATTCTAGAAATTGTTTCACAAGAAACA
1 ATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACA
*
38616 AAAAATCATC-CACTTGAGATTGTTTTTCTT-AAACCA
66 AAAATTCATCTCACTTGAGATTGTTTTTCTTAAAACCA
* * * *
38652 ATTTCGTCTAGCCTGAGA-ATGTTTTCCTTTGAAACACAAA-TTTAGATATTAG-TTCACTCG--
1 ATTTCGTCTCGCTTGAGACA-G-TTTCCCTTGAAACACAAATTTTAGAAATT-GTTTCACTCGAA
* ** *
38712 --AAAATTTCAAATCACTTGATATTGTTTTTCTT-AAACCA
63 ACAAAAATTCATCTCACTTGAGATTGTTTTTCTTAAAACCA
* * * * *
38750 ATTTTGTCAT-GCTTGAGTCAGTTTCCCTTGAAACTCAAATTTTAGAAATT-ATTCAATCG-AA-
1 ATTTCGTC-TCGCTTGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAAC
* * *
38811 AAAAATTGATGTCACTTGAGATTGTTTTTCTTGAAACCAA
65 AAAAATTCATCTCACTTGAGATTGTTTTTCTTAAAACC-A
* *
38851 ATTT-ATCTCGCTTGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATAGTTTCACTCGAAACA
1 ATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACA
** *
38915 AAAA-AAATCT--CTTGATG-TTG-TTTTCTTAAAATCA
66 AAAATTCATCTCACTTGA-GATTGTTTTTCTTAAAACCA
* * * *
38949 ATTTTGTCTCGCTTGAGATAGTTTCCTTTGAAATACAAATTTTAGAAATTGTTTCACTCGAAACA
1 ATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACA
39014 AAAATTCATCTCACTTGAGATT-TTTTT-TTAAAAACCA
66 AAAATTCATCTCACTTGAGATTGTTTTTCTT-AAAACCA
* * * * * * * *
39051 ATTTCGTCTTGCTTTAGACAATTTTCCCTTGATACACAAATATTACAAAATGTTTAACTCGAAAC
1 ATTTCGTCTCGCTTGAGAC-AGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAAC
* ** *
39116 AAAAATTAAAATCACTTGAGATTGTTTTTCTTAAAAAGCA
65 AAAAATTCATCTCACTTGAGATTGTTTTTCTT-AAAACCA
* * * * * * *
39156 ATATCGTCTTGCTTCAGACAGTTTCTCTTGACACACAAATTTTAGAAATTATTTC-GTACGAAAC
1 ATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACT-CGAAAC
* * * * * * *
39220 AAAATTTTATCCCAATTGATATTATTTTTCTTAAAATCA
65 AAAAATTCATCTCACTTGAGATTGTTTTTCTTAAAACCA
* * * *
39259 ATTTCGTCTCGCTTAAGACAATTTCCCTTGAAATAGAAATTTT-GAAATTGTTTCAC-CAGAAA-
1 ATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTC-GAAAC
* *
39321 AAAAA-T-ATTCTCACTTGATATTCTTTTTCTTAAAACCA
65 AAAAATTCA-TCTCACTTGAGATTGTTTTTCTTAAAACCA
** * * *
39359 ATTTAATCTCGCTTGAGACAGTTTCCCTAGAAACATAAATTTTAAAAATTGTTTCACTCGAAACA
1 ATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACA
*
39424 AAAATTTATCTCACTTGAGATT-TTTTTCTTAAAACCA
66 AAAATTCATCTCACTTGAGATTGTTTTTCTTAAAACCA
* * * * ** * *
39461 ATTTCTTATCGCTTGAGCCAATTTTCCCTTGAAACACGTATTTTACAAATTATTTCACTCGAAAC
1 ATTTCGTCTCGCTTGAGAC-AGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAAC
* *
39526 GAAAACTT-ATCTCACTTGAGATTGTTCTTCTTAAAACCA
65 -AAAAATTCATCTCACTTGAGATTGTTTTTCTTAAAACCA
* * * ** * *
39565 ATTTTGTCTCGCTTGAGACAGTTTCCCTTGAAATACAAATTCTAG-AATT-TTTTTCTCAAAACG
1 ATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACA
* *
39628 AAAA-TCAATCTCAGTTGAGATT-TTTTTCTTAAAATCA
66 AAAATTC-ATCTCACTTGAGATTGTTTTTCTTAAAACCA
* * * *
39665 ATTTCGTCTAGCATGTGA-ATGTTTTCCCTTGAAACACAAATTTTAGAAATTGTTTAACTC-AAA
1 ATTTCGTCTCGCTTGAGACA-G-TTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAA
* * **
39728 -AACAATTAAAATCACTTGAGATTGTTTTTCTTAAAACCA
64 CAAAAATTCATCTCACTTGAGATTGTTTTTCTTAAAACCA
* * * * *
39767 ATTTCGTCAT-GCTTTAGACAATTTCCCTTGAAACACTAATTTTAGAAATTGTTTCACTCAAAAT
1 ATTTCGTC-TCGCTTGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAAC
* *
39831 AAAAATTCATATCACTTGATATTGTTTTTCTTAAAACCA
65 AAAAATTCATCTCACTTGAGATTGTTTTTCTTAAAACCA
* * * * * * *
39870 ATTTCATCTTGTTTGAGACATTTTCCCTTTAAAAACAAATTTTAGAAATTGTTTCACAT-GAAAT
1 ATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCAC-TCGAAAC
* *
39934 AAAAATAT-ATCTCA-TGTGAGATTATTTTTCTTAAAACAA
65 AAAAAT-TCATCTCACT-TGAGATTGTTTTTCTTAAAACCA
* * * ** * **
39973 ATTTCATCTCGCTTGATACAGTTTTCCTTGAATTAGAAATTTT-GAAATTGTTTCACTC--AGGA
1 ATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACA
** * * *
40035 AAAATTTGTCTAACGTGAGATTCTTTTTCTTAAAACCA
66 AAAATTCATCTCACTTGAGATTGTTTTTCTTAAAACCA
* * * * * *
40073 ATTTCTTCTCGTTTGAGACAGTTTTCCATTTAAACACAAATTTTAGAAATTATTTCAATCGAAAC
1 ATTTCGTCTCGCTTGAGACAG-TTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAAC
40138 AAAAATTCATCTCACTTGAGATTGTTTTTTCTTAAAACCA
65 AAAAATTCATCTCACTTGAGATTG-TTTTTCTTAAAACCA
* * * * * *
40178 ATTTCGTCTTGCCTGAGATAGTTTTCCCTTGAAACTCAAATTTTACAAATTGTTTCACTTGAAGA
1 ATTTCGTCTCGCTTGAGACAG-TTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCG-A-A
* * * *
40243 AAAAAAATTAATCTCATTTGAGATTGTTTTTCTTAAAATCA
63 ACAAAAATTCATCTCACTTGAGATTGTTTTTCTTAAAACCA
* * * * * * *
40284 ATTTCATCTCGCTTGAGACAATTTCCCATGAAACAAAAATTTTTGAAATTGTATCACTCGAAATA
1 ATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACA
* * *
40349 AAAATTAATCTCACTTGAGAATGTTTTTCTTAAAACTA
66 AAAATTCATCTCACTTGAGATTGTTTTTCTTAAAACCA
* * * * * * *
40387 ATCTCGTCTCGCTTGAGACAATTTTCCCTTGAAACACAACTTCTAGAAATT-ATTCATTCGAAAG
1 ATTTCGTCTCGCTTGAGAC-AGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAAC
*
40451 AAAAATTCATCTCACTTAAGATTGTTTTTCTTAAAACCA
65 AAAAATTCATCTCACTTGAGATTGTTTTTCTTAAAACCA
* * * *
40490 ATTTCATCTCGCTTAAGACAAATTT-CCTTGAAACACAAATTTTAGAAATTGTTTCACTAGAAAC
1 ATTTCGTCTCGCTTGAGAC-AGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAAC
* * *
40554 AAAAATTCATCTCAATTGAGATTATTTTTCTTAAAACTA
65 AAAAATTCATCTCACTTGAGATTGTTTTTCTTAAAACCA
* * *
40593 ATTTTC-TCTAGCTTGACACAGTTTTCCCTTGAAAAACAAATTTTAGAAA---TTT-ACTCGAAA
1 A-TTTCGTCTCGCTTGAGACAG-TTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAA
* * * * * * *
40653 CAAAAATTCATCTTACATGATATGGTTTTCCTTCAAATCA
64 CAAAAATTCATCTCACTTGAGATTGTTTTTCTTAAAACCA
* * * * * *
40693 ATTTCGTCTCACTTGAGATAGTTTCCCTTAAAACACAAATTTTAGAAATTGCTTCACTAGAAACT
1 ATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACA
* *
40758 AAAATAT-ATTTCACCTGAGATTGTTTTTCTTAAAACCA
66 AAAAT-TCATCTCACTTGAGATTGTTTTTCTTAAAACCA
* * * * * * * *
40796 ATTTCTTCTCGCTTGAGACAGTTTTCCTTGAAAAACAAAATTTAGAAATTATTCCACTTGAAATA
1 ATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACA
* *
40861 AAATTTCTTCTCACTTGAGATTGTTTTTCTTAAAACCA
66 AAAATTCATCTCACTTGAGATTGTTTTTCTTAAAACCA
* * * * * *** * * **
40899 AATTCGTCTTGCCTAAGACAATTTTTTTTTAAAACAAAAAAATTAGAAATTGTTTCACTCGAAAA
1 ATTTCGTCTCGCTTGAGAC-AGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCG-AAA
* * *
40964 AAAAATATTCAAAC-CACTTGAGACTGTTTTTCTTAAAACCA
64 CAAAA-ATTC-ATCTCACTTGAGATTGTTTTTCTTAAAACCA
* * * *
41005 ATTTCTTCTCGCTTGAGACAGTTTCCCTTCAAACAAAAAATTTAGAAATTGTTTCACAT-GAAAC
1 ATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCAC-TCGAAAC
* * * * * *
41069 AAAAATTTATCTCACTTAATATT-ATTTTCTTAATATCA
65 AAAAATTCATCTCACTTGAGATTGTTTTTCTTAAAACCA
* * * * * *
41107 ATTTCGTCTCTCTTGATATAGTTTCCCTCGAAA-A-AAA-TTT-GAAAGTGTTTCACTCAGGAA-
1 ATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTC-GAAAC
*
41167 AAAAATT-A--TCACTTGAGATTCTTTTTCTTAAAACCA
65 AAAAATTCATCTCACTTGAGATTGTTTTTCTTAAAACCA
* * *
41203 TTTTCATCTCGCTTGAGACAGTTTCCCTTGAAACACAAA-TTTAGAAATTGTTTCACTCTAAACA
1 ATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACA
* * *
41267 AAATTTCATCTCACATGAGATTGTTCTTCTTAAAACCA
66 AAAATTCATCTCACTTGAGATTGTTTTTCTTAAAACCA
* * * *
41305 ATTTCTTCTCGCCTGAGACAGTTTTCCCTTGAAACACAAATTTTACAAATTGTTTTACTCGAAAC
1 ATTTCGTCTCGCTTGAGACAG-TTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAAC
* * *
41370 AAAAATTCATCTCACTTGATATTATTCTTCTTAAAACCA
65 AAAAATTCATCTCACTTGAGATTGTTTTTCTTAAAACCA
* * * * *
41409 ATTCCGTCTTGCTTAAGACAATTTCCCTTGAAACA-AAATTTTAGAAATTGTTTCACTCGAAATA
1 ATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACA
*
41473 AAAATTCATCTCACTTGAGGTTGTGTTTT
66 AAAATTCATCTCACTTGAGATTGT-TTTT
41502 TGTGTCGCAT
Statistics
Matches: 3056, Mismatches: 498, Indels: 235
0.81 0.13 0.06
Matches are distributed among these distances:
95 10 0.00
96 39 0.01
97 33 0.01
98 85 0.03
99 171 0.06
100 293 0.10
101 194 0.06
102 418 0.14
103 1107 0.36
104 438 0.14
105 168 0.05
106 75 0.02
107 25 0.01
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.38
Consensus pattern (103 bp):
ATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACA
AAAATTCATCTCACTTGAGATTGTTTTTCTTAAAACCA
Found at i:41835 original size:103 final size:103
Alignment explanation
Indices: 41525--42168 Score: 725
Period size: 103 Copynumber: 6.3 Consensus size: 103
41515 ACAATTTACT
* ** * *
41525 TTGAAACACAAATTTTAGAAATTGTTTCACTAGAAATGAAAATTCATCTCACTTGAAATCG-TTT
1 TTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACAAAAATTCATCTCACTTGAGATTGTTTT
* ** *
41589 TCTTAAAACCAATTTCCTCTCGCTTGTTACACTTTTCCC
66 TCTTAAAACCAATTTCGTCTCGCTTGAGACA-GTTTCCC
* * * *
41628 TTGAAATACAAATTTTTGAAATTGTTTCACTCGAAACAAAAATTCA--TGACTTGAGTTTGTTTT
1 TTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACAAAAATTCATCTCACTTGAGATTGTTTT
* * * *
41691 TCTTAAAACCAATTTCATCTTGCTTGAGATAATTTCCC
66 TCTTAAAACCAATTTCGTCTCGCTTGAGACAGTTTCCC
* * * * *
41729 TTGAAACACAAATTTCAGAAATTGTTTCACTCAAAACAAAAATTTATTTCACTTGAGATTTTTTT
1 TTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACAAAAATTCATCTCACTTGAGATTGTTTT
* *
41794 TCTTAAAACTAATTTCGTCTCGCTTGAGGCAGTTTCCC
66 TCTTAAAACCAATTTCGTCTCGCTTGAGACAGTTTCCC
* * *
41832 TTGAAATACAAATTCTAGAAATTGTTTCACTCGAAACGAAAATTCATCTCACTTTG-GATTGTTT
1 TTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACAAAAATTCATCTCAC-TTGAGATTGTTT
* * * **
41896 TTCTTAAAACTAATTTTGTATCGCCGGAGA-ATGTTTTCCC
65 TTCTTAAAACCAATTTCGTCTCGCTTGAGACA-G-TTTCCC
* * **
41936 TTGAAACACAAATTTTAGAAATTGTTTAAGTC-AAA-AAAAA-TCAAATCACTTGAGATTGTTTT
1 TTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACAAAAATTCATCTCACTTGAGATTGTTTT
* ** * *
41998 TCTTAAAACCAATTTTGTCTTTCTAGAGACAGTTTTCC
66 TCTTAAAACCAATTTCGTCTCGCTTGAGACAGTTTCCC
* *
42036 TTGAAACACAAATTTTAGAAATTGTTTCACGT-GAAACAAAAATAT-ATTTCACTTGAGATTATT
1 TTGAAACACAAATTTTAGAAATTGTTTCAC-TCGAAACAAAAAT-TCATCTCACTTGAGATTGTT
* * *
42099 TTTCTTAATATCAATTTTGTCTCGCTTGAGACAGTTTCCC
64 TTTCTTAAAACCAATTTCGTCTCGCTTGAGACAGTTTCCC
* *
42139 TTGAAACATAAATTCT-GAAATTGTTTCACT
1 TTGAAACACAAATTTTAGAAATTGTTTCACT
42169 GTAACACCCC
Statistics
Matches: 459, Mismatches: 69, Indels: 28
0.83 0.12 0.05
Matches are distributed among these distances:
100 36 0.08
101 101 0.22
102 53 0.12
103 231 0.50
104 38 0.08
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (103 bp):
TTGAAACACAAATTTTAGAAATTGTTTCACTCGAAACAAAAATTCATCTCACTTGAGATTGTTTT
TCTTAAAACCAATTTCGTCTCGCTTGAGACAGTTTCCC
Found at i:41876 original size:204 final size:204
Alignment explanation
Indices: 41525--42168 Score: 721
Period size: 204 Copynumber: 3.2 Consensus size: 204
41515 ACAATTTACT
* * * * *
41525 TTGAAACACAAATTTTAGAAATTGTTTCACT-AGAAATGAAAATTCATCTCACTTGA-AATCGTT
1 TTGAAACACAAATTTCAGAAATTGTTTCACTCA-AAA-AAAAATTCATATCACTTGAGATTCTTT
* ** * *
41588 TTCTTAAAACCAATTTCCTCTCGCTTGTTACACTTTTCCCTTGAAATACAAATTTTTGAAATTGT
64 TTCTTAAAACCAATTTCGTCTCGCTTGAGACA-GTTTCCCTTGAAATACAAATTTTAGAAATTGT
* * ** *
41653 TTCACTCGAAACAAAAATTCA-TGACTTGAGTTTGTTTTTCTTAAAACCAATTTCATCTTGCTTG
128 TTCACTCGAAACAAAAATTCATTCACTTGAGATTGTTTTTCTTAAAACCAATTTTGTCTCGCTTG
41717 AGATAATTTCCC
193 AGATAATTTCCC
* * *
41729 TTGAAACACAAATTTCAGAAATTGTTTCACTCAAAACAAAAATTTATTTCACTTGAGATTTTTTT
1 TTGAAACACAAATTTCAGAAATTGTTTCACTCAAAA-AAAAATTCATATCACTTGAGATTCTTTT
* * *
41794 TCTTAAAACTAATTTCGTCTCGCTTGAGGCAGTTTCCCTTGAAATACAAATTCTAGAAATTGTTT
65 TCTTAAAACCAATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAATACAAATTTTAGAAATTGTTT
* * * **
41859 CACTCGAAACGAAAATTCATCTCACTTTG-GATTGTTTTTCTTAAAACTAATTTTGTATCGCCGG
130 CACTCGAAACAAAAATTCAT-TCAC-TTGAGATTGTTTTTCTTAAAACCAATTTTGTCTCGCTTG
**
41923 AGAATGTTTTCCC
193 AG-ATAATTTCCC
* * * * *
41936 TTGAAACACAAATTTTAGAAATTGTTTAAGTC-AAAAAAAA-TCAAATCACTTGAGATTGTTTTT
1 TTGAAACACAAATTTCAGAAATTGTTTCACTCAAAAAAAAATTCATATCACTTGAGATTCTTTTT
* ** * * *
41999 CTTAAAACCAATTTTGTCTTTCTAGAGACAGTTTTCCTTGAAACACAAATTTTAGAAATTGTTTC
66 CTTAAAACCAATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAATACAAATTTTAGAAATTGTTTC
* * *
42064 ACGT-GAAACAAAAATAT-ATTTCACTTGAGATTATTTTTCTTAATATCAATTTTGTCTCGCTTG
131 AC-TCGAAACAAAAAT-TCA-TTCACTTGAGATTGTTTTTCTTAAAACCAATTTTGTCTCGCTTG
* *
42127 AGACAGTTTCCC
193 AGATAATTTCCC
* *
42139 TTGAAACATAAA-TTCTGAAATTGTTTCACT
1 TTGAAACACAAATTTCAGAAATTGTTTCACT
42169 GTAACACCCC
Statistics
Matches: 370, Mismatches: 60, Indels: 22
0.82 0.13 0.05
Matches are distributed among these distances:
202 14 0.04
203 21 0.06
204 220 0.59
205 40 0.11
206 35 0.09
207 40 0.11
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (204 bp):
TTGAAACACAAATTTCAGAAATTGTTTCACTCAAAAAAAAATTCATATCACTTGAGATTCTTTTT
CTTAAAACCAATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAATACAAATTTTAGAAATTGTTTC
ACTCGAAACAAAAATTCATTCACTTGAGATTGTTTTTCTTAAAACCAATTTTGTCTCGCTTGAGA
TAATTTCCC
Found at i:42086 original size:307 final size:307
Alignment explanation
Indices: 41525--42168 Score: 845
Period size: 307 Copynumber: 2.1 Consensus size: 307
41515 ACAATTTACT
* *
41525 TTGAAACACAAATTTTAGAAATTGTTTCACTAGAAATGAAAATTCATCTCACTTGAAATCGTTTT
1 TTGAAACACAAATTCTAGAAATTGTTTCACTAGAAACGAAAATTCATCTCACTTGAAATCGTTTT
* ** ** * *
41590 CTTAAAACCAATTTCCTCTCGCTTGTTACACTTTTCCCTTGAAATACAAATTTTTGAAATTGTTT
66 CTTAAAACCAATTTCCTATCGCCGGAGACACTTTTCCCTTGAAACACAAATTTTAGAAATTGTTT
* * * *
41655 CACTCGAAACAAAAATTCATGACTTGAGTTTGTTTTTCTTAAAACCAATTTCATCTTGCTTGAGA
131 AACTCGAAACAAAAATTCATCACTTGAGATTGTTTTTCTTAAAACCAATTTCATCTTGCTAGAGA
* *
41720 TAATTTCCCTTGAAACACAAATTTCAGAAATTGTTTCACTCAAAACAAAAATTTATTTCACTTGA
196 CAATTTCCCTTGAAACACAAATTTCAGAAATTGTTTCACTCAAAACAAAAATATATTTCACTTGA
* *
41785 GATTTTTTTTCTTAAAA-CTAATTTCGTCTCGCTTGAGGCAGTTTCCC
261 GATTATTTTTCTTAAAATC-AATTTCGTCTCGCTTGAGACAGTTTCCC
* * * *
41832 TTGAAATACAAATTCTAGAAATTGTTTCACTCGAAACGAAAATTCATCTCACTTTG-GATTGTTT
1 TTGAAACACAAATTCTAGAAATTGTTTCACTAGAAACGAAAATTCATCTCAC-TTGAAATCG-TT
* ** *
41896 TTCTTAAAACTAATTTTGTATCGCCGGAGA-ATGTTTTCCCTTGAAACACAAATTTTAGAAATTG
64 TTCTTAAAACCAATTTCCTATCGCCGGAGACA-CTTTTCCCTTGAAACACAAATTTTAGAAATTG
* ** *
41960 TTTAAGTC-AAA-AAAAA-TCAAATCACTTGAGATTGTTTTTCTTAAAACCAATTTTGTCTTTCT
128 TTTAACTCGAAACAAAAATTC--ATCACTTGAGATTGTTTTTCTTAAAACCAATTTCATCTTGCT
* * * *
42022 AGAGACAGTTTTCCTTGAAACACAAATTTTAGAAATTGTTTCACGT-GAAACAAAAATATATTTC
191 AGAGACAATTTCCCTTGAAACACAAATTTCAGAAATTGTTTCAC-TCAAAACAAAAATATATTTC
* *
42086 ACTTGAGATTATTTTTCTTAATATCAATTTTGTCTCGCTTGAGACAGTTTCCC
255 ACTTGAGATTATTTTTCTTAAAATCAATTTCGTCTCGCTTGAGACAGTTTCCC
*
42139 TTGAAACATAAATTCT-GAAATTGTTTCACT
1 TTGAAACACAAATTCTAGAAATTGTTTCACT
42169 GTAACACCCC
Statistics
Matches: 293, Mismatches: 37, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
305 2 0.01
306 19 0.06
307 208 0.71
308 64 0.22
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (307 bp):
TTGAAACACAAATTCTAGAAATTGTTTCACTAGAAACGAAAATTCATCTCACTTGAAATCGTTTT
CTTAAAACCAATTTCCTATCGCCGGAGACACTTTTCCCTTGAAACACAAATTTTAGAAATTGTTT
AACTCGAAACAAAAATTCATCACTTGAGATTGTTTTTCTTAAAACCAATTTCATCTTGCTAGAGA
CAATTTCCCTTGAAACACAAATTTCAGAAATTGTTTCACTCAAAACAAAAATATATTTCACTTGA
GATTATTTTTCTTAAAATCAATTTCGTCTCGCTTGAGACAGTTTCCC
Found at i:42968 original size:18 final size:18
Alignment explanation
Indices: 42945--42983 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
42935 ACCGGTCACA
42945 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
42963 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
42981 ACC
1 ACC
42984 GTTGACCCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.18, C:0.51, G:0.21, T:0.10
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:42987 original size:7 final size:7
Alignment explanation
Indices: 42975--43006 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
42965 CCGACCCGAC
42975 CCGTTGA
1 CCGTTGA
42982 CCGTTGA
1 CCGTTGA
42989 CCCGTTGA
1 -CCGTTGA
42997 CCGTTGA
1 CCGTTGA
43004 CCG
1 CCG
43007 GAGTTGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.12, C:0.34, G:0.28, T:0.25
Consensus pattern (7 bp):
CCGTTGA
Found at i:42992 original size:15 final size:15
Alignment explanation
Indices: 42972--43005 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
42962 GACCCGACCC
42972 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
42987 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
43002 GACC
1 GACC
43006 GGAGTTGACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.15, C:0.35, G:0.26, T:0.24
Consensus pattern (15 bp):
GACCCGTTGACCGTT
Found at i:45565 original size:24 final size:24
Alignment explanation
Indices: 45469--45577 Score: 103
Period size: 24 Copynumber: 4.5 Consensus size: 24
45459 GAATATTTTA
* *
45469 TCTGATTTCTGATTTGAATTCTGT
1 TCTGATATCTGATCTGAATTCTGT
* * *
45493 TTTGACATCTGATCTGAAATCTGT
1 TCTGATATCTGATCTGAATTCTGT
* * *
45517 TCTGAT-TCCTAACCTGGATTCTGT
1 TCTGATAT-CTGATCTGAATTCTGT
*
45541 TCTGATATCTGATCTGAATTATGT
1 TCTGATATCTGATCTGAATTCTGT
* *
45565 TTTGATTTCTGAT
1 TCTGATATCTGAT
45578 ATCTCCGTTT
Statistics
Matches: 66, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
23 1 0.02
24 64 0.97
25 1 0.02
ACGTcount: A:0.20, C:0.16, G:0.17, T:0.48
Consensus pattern (24 bp):
TCTGATATCTGATCTGAATTCTGT
Found at i:46580 original size:104 final size:105
Alignment explanation
Indices: 46361--46580 Score: 239
Period size: 104 Copynumber: 2.1 Consensus size: 105
46351 TCTTTTTCTT
* *
46361 AAAACTAATTTATTCTCGCTTGAGACAGTTTTCCCCTTGAAACACAAATGTTAGAAATTGTTTCA
1 AAAACTAATTTATTCTCGCTTGAGACAATTTTCCCCTTGAAACACAAATGTTACAAATTGTTTCA
* * * * ** ** * *
46426 CTCGAAACTAAACTTCATCTCACTTGAGAATGTTTTTCTT
66 CTCGAAACAAAAATTAAACGAACTTGAGAATAATTTCCTG
* * *
46466 AAAAGTAATTTCA-TCTCGCTTGAGACAATTTT-CCCTTGAAACTCAAAT-TTCACAATTTGTTT
1 AAAACTAATTT-ATTCTCGCTTGAGACAATTTTCCCCTTGAAACACAAATGTT-ACAAATTGTTT
* *
46528 CACTCGAAACAAAAATTAAACGAATTTGAGATTAATTTCCTG
64 CACTCGAAACAAAAATTAAACGAACTTGAGAATAATTTCCTG
*
46570 AAAACCAATTT
1 AAAACTAATTT
46581 TGTCTTACTT
Statistics
Matches: 94, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
103 2 0.02
104 63 0.67
105 28 0.30
106 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.35
Consensus pattern (105 bp):
AAAACTAATTTATTCTCGCTTGAGACAATTTTCCCCTTGAAACACAAATGTTACAAATTGTTTCA
CTCGAAACAAAAATTAAACGAACTTGAGAATAATTTCCTG
Found at i:46793 original size:102 final size:102
Alignment explanation
Indices: 46342--46926 Score: 307
Period size: 102 Copynumber: 5.7 Consensus size: 102
46332 AAATTGTCTT
* * * * * *
46342 ACTTGAGATTCTTTTTCTTAAAACTAATTT-ATTCTCGCTTGAGACAGTTTTCCCCTTGAAACAC
1 ACTTGAGAATATTTTTCTTACAACCAATTTCA-TCTCGCTTGAGACA-ATTT-CCCTTGAAACAA
* * * * * ***
46406 AAATGTTAGAAATTGTTTCACTCGAAACTAAACTTCATCTC
63 AAATTTTAGAAAATATTTCACTTGAAA-AAAAAAGCATCTC
* * ** **
46447 ACTTGAGAATGTTTTTCTTAAAAGTAATTTCATCTCGCTTGAGACAATTTTCCCTTGAAACTCAA
1 ACTTGAGAATATTTTTCTTACAACCAATTTCATCTCGCTTGAGACAA-TTTCCCTTGAAACAAAA
* * ** * * *** * **
46512 ATTTCACAATTTGTTTCACTCGAAACAAAAATTAAACGA
65 ATTTTAGAAAATATTTCACTTGAAA-AAAAAAGCATCTC
* * * * * * ** ** * * *
46551 ATTTGAGATTAATTTCCTGAAAACCAATTTTGTCTTACTT--GACAGTTTTCCTT-AAGACAAAT
1 ACTTGAGAATATTTTTCTTACAACCAATTTCATCTCGCTTGAGACAATTTCCCTTGAA-ACAAAA
* * * * * *
46613 TTTTTCGATATTGTTTCACTTCGAAACAAAAAATCATCTC
65 ATTTTAGAAAATATTTCACTT-GAAA-AAAAAAGCATCTC
* * *
46653 ACTTGAGAATATTTTTTTTACAACCAATTTCATCTCGCTTGAGACAGTTTCCCTTGACACAAAAA
1 ACTTGAGAATATTTTTCTTACAACCAATTTCATCTCGCTTGAGACAATTTCCCTTGAAACAAAAA
*
46718 TTTTCGAAAATATTTCACTTGAAAAAAAAAGCATCTC
66 TTTTAGAAAATATTTCACTTGAAAAAAAAAGCATCTC
* * * * ** * * * *
46755 ACTTGTGAATGTTTTTCTTAGAACCATTTTTGTTTCGCTTGAGATAATTTTCCTTGAAACACAAA
1 ACTTGAGAATATTTTTCTTACAACCAATTTCATCTCGCTTGAGACAATTTCCCTTGAAACAAAAA
* * * *** *
46820 TTTTAGAAATTGTTTTACTTGAAAGAAAATTTCATTTC
66 TTTTAGAAAATATTTCACTTGAAA-AAAAAAGCATCTC
* * * * * * * **
46858 ACATGAGATTGA-TTTTCTTAAAATCAATTTCGTCTCGCATGAGACAATTTACCTTGAAACCTAA
1 ACTTGAGAAT-ATTTTTCTTACAACCAATTTCATCTCGCTTGAGACAATTTCCCTTGAAACAAAA
46922 ATTTT
65 ATTTT
46927 CACTAGAAAC
Statistics
Matches: 373, Mismatches: 98, Indels: 20
0.76 0.20 0.04
Matches are distributed among these distances:
100 2 0.01
101 24 0.06
102 130 0.35
103 67 0.18
104 104 0.28
105 45 0.12
106 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (102 bp):
ACTTGAGAATATTTTTCTTACAACCAATTTCATCTCGCTTGAGACAATTTCCCTTGAAACAAAAA
TTTTAGAAAATATTTCACTTGAAAAAAAAAGCATCTC
Found at i:47098 original size:300 final size:298
Alignment explanation
Indices: 46626--47201 Score: 703
Period size: 300 Copynumber: 1.9 Consensus size: 298
46616 TTCGATATTG
*
46626 TTTCACTTCGAAACAAAAAATCATCTCACTTGAGAATATTTTTTTTACAACCAATTTCATCTCGC
1 TTTCACTTAGAAACAAAAAATCATCTCACTTGAGAATATTTTTTTTACAACCAATTTCATCTCGC
* * * **
46691 TTGAGACAGTTTCCCTTGACACAAAAATTTTCGAAAATATTTCACTTGAAAAAAAAAGCATCTCA
66 TTGACACAGTTTCCCTTGAAACAAAAATTTTAGAAAATATTTCACCCGAAAAAAAAAGCATCTCA
* * * * * * * * *
46756 CTTGTGAATGTTTTTCTTAGAACCATTTTTGTTTCGCTTGAGATAATTTTCCTTGAAACACAAAT
131 CTTGAGAATGATTTTCTTAAAACCAATTTCGTCTCGCTTGAGACAATTTCCCCTGAAACACAAAT
* * * * * *
46821 TTTAGAAATTGTTTTACTTGAAA-GAAAATTTCATTTCACATGAGATTGATTTTCTTAAAATCAA
196 TTTAGAAATTGCTTCACTCGAAACAAAAATTT-ATATCACATGAGATTGATTTTCTTAAAACCAA
46885 TTTCGTCTCGCATGAGACAATTTACCTTGAAACCTAAAT
260 TTTCGTCTCGCATGAGACAATTTACCTTGAAACCTAAAT
* * * *
46924 TTTCAC-TAGAAACAAAAATTCATGTCACTTGAGATTGTTTTCTCTTTA-AACCAATTTTC-TCT
1 TTTCACTTAGAAACAAAAAATCATCTCACTTGAGAATATTTT-T-TTTACAACCAA-TTTCATCT
** * * * **
46986 CG-TTAGACACAGTTTTCCCTTGAAACGCAAATTTTAGAAATTGTTTTACCCGAAACAAAAATTC
63 CGCTT-GACACAG-TTTCCCTTGAAACAAAAATTTTAGAAAATATTTCACCCGAAA-AAAAAAGC
* * *
47050 ATCTCACTTGAGATTGATTTTCTTAAAACCAATTTCGTCTCTCTTGAGACAGTTTCCCCTGAAAC
125 ATCTCACTTGAGAATGATTTTCTTAAAACCAATTTCGTCTCGCTTGAGACAATTTCCCCTGAAAC
* *
47115 ACAAATTTTAGAAATTGCTTCACTCGAAACAAAAATTTATATCACCTGAGATTGTTTTTCTTAAA
190 ACAAATTTTAGAAATTGCTTCACTCGAAACAAAAATTTATATCACATGAGATTGATTTTCTTAAA
* *
47180 ACCAATTTCGTCTTGCTTGAGA
255 ACCAATTTCGTCTCGCATGAGA
47202 TTGTTTTTTC
Statistics
Matches: 232, Mismatches: 39, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
297 32 0.14
298 24 0.10
299 41 0.18
300 128 0.55
301 7 0.03
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (298 bp):
TTTCACTTAGAAACAAAAAATCATCTCACTTGAGAATATTTTTTTTACAACCAATTTCATCTCGC
TTGACACAGTTTCCCTTGAAACAAAAATTTTAGAAAATATTTCACCCGAAAAAAAAAGCATCTCA
CTTGAGAATGATTTTCTTAAAACCAATTTCGTCTCGCTTGAGACAATTTCCCCTGAAACACAAAT
TTTAGAAATTGCTTCACTCGAAACAAAAATTTATATCACATGAGATTGATTTTCTTAAAACCAAT
TTCGTCTCGCATGAGACAATTTACCTTGAAACCTAAAT
Found at i:47121 original size:103 final size:104
Alignment explanation
Indices: 46932--47201 Score: 368
Period size: 103 Copynumber: 2.6 Consensus size: 104
46922 ATTTTCACTA
* * *
46932 GAAACAAAAATTCATGTCACTTGAGATTGTTTTCTCTTTAAACCAATTT--TCTCTCGTTAGACA
1 GAAACAAAAATTCATATCACTTGAGATTGTTTT-TCTTAAAACCAATTTCGTCTCTC-TT-GAGA
* * * *
46995 CAGTTTTCCCTTGAAACGCAAATTTTAGAAATTGTTTTACCC
63 CAGTTTTCCCCTGAAACACAAATTTTAGAAATTGCTTCACCC
* *
47037 GAAACAAAAATTCATCTCACTTGAGATTGATTTTCTTAAAACCAATTTCGTCTCTCTTGAGACAG
1 GAAACAAAAATTCATATCACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCTCTTGAGACAG
*
47102 -TTTCCCCTGAAACACAAATTTTAGAAATTGCTTCACTC
66 TTTTCCCCTGAAACACAAATTTTAGAAATTGCTTCACCC
* *
47140 GAAACAAAAATTTATATCACCTGAGATTGTTTTTCTTAAAACCAATTTCGTCT-TGCTTGAGA
1 GAAACAAAAATTCATATCACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCT-CTTGAGA
47202 TTGTTTTTTC
Statistics
Matches: 149, Mismatches: 13, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
102 1 0.01
103 89 0.60
104 20 0.13
105 33 0.22
106 6 0.04
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.36
Consensus pattern (104 bp):
GAAACAAAAATTCATATCACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCTCTTGAGACAG
TTTTCCCCTGAAACACAAATTTTAGAAATTGCTTCACCC
Found at i:47201 original size:36 final size:37
Alignment explanation
Indices: 47161--47232 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
47151 TTATATCACC
*
47161 TGAGATTG-TTTTTCTTAAAACCAATTTCGTCTTGCT
1 TGAGATTGTTTTTTCTTAAAACCAAATTCGTCTTGCT
47197 TGAGATTGTTTTTTCTTAAAACCAAATTCGTCTTGC
1 TGAGATTGTTTTTTCTTAAAACCAAATTCGTCTTGC
47233 CTCAGACAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
36 8 0.24
37 26 0.76
ACGTcount: A:0.24, C:0.17, G:0.14, T:0.46
Consensus pattern (37 bp):
TGAGATTGTTTTTTCTTAAAACCAAATTCGTCTTGCT
Found at i:47247 original size:37 final size:37
Alignment explanation
Indices: 47169--47249 Score: 99
Period size: 37 Copynumber: 2.2 Consensus size: 37
47159 CCTGAGATTG
* * * ****
47169 TTTTTCTTAAAACCAATTTCGTCTTGCTTGAGATTGT
1 TTTTTCTTAAAACCAAATTCGTCTTGCCTCAGACAAA
47206 TTTTTCTTAAAACCAAATTCGTCTTGCCTCAGACAAA
1 TTTTTCTTAAAACCAAATTCGTCTTGCCTCAGACAAA
47243 TTTTTCT
1 TTTTTCT
47250 AGAAGCAAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.20, G:0.10, T:0.46
Consensus pattern (37 bp):
TTTTTCTTAAAACCAAATTCGTCTTGCCTCAGACAAA
Found at i:47453 original size:347 final size:349
Alignment explanation
Indices: 46924--47571 Score: 846
Period size: 347 Copynumber: 1.9 Consensus size: 349
46914 AAACCTAAAT
** * * *
46924 TTTCACTAGAAACAAAAATTCATGTCACTTGAGATTGTTTTCTCTTTAAACCAATTTTCTCTCGT
1 TTTCACTAGAAACAAAAATTCAAATAACTTGAGATTGTTTTCTCGTAAAACCAATTTTCTCTCGT
* * * *
46989 TAGACACAGTTTTCCCTTGAAACGCAAATTTTAGAAATTGTTTTACCCGAAACAAAAATTCATCT
66 TAGACACAGTTTCCCCTTGAAACGAAAATTTTAGAAATTGTTTCACACGAAACAAAAATTCATCT
* *
47054 CACTTGAGATTGATTTTCTTAAAACCAATTTCGTCTCTCTTGAGACAGTTTCCCCTGAAACACAA
131 CACGTGAGATTGATTTTCTTAAAACCAATTTCGTCCCTCTTGAGACAGTTTCCCCTGAAACACAA
** *
47119 ATTTTAGAAATTGCTTCACTCGAAACAAAAATTTATATCACCTGAGATTGTTTTTCTT-AAAACC
196 ATTTT-GAAATTGCTTCACTC-AAACAAAAAAAT-TATCACCTGAGATTCTTTTTCTTAAAAACC
* ** **
47183 AATTTCGTCTTGCTTGAGATTG-TTTTTTCTTAAAAC-CAAATTCGTCTTGCCTCAGACAAATTT
258 AATTTCATCTCACTTGAGACAGTTTTTTTCTTAAAACGCAAATTCGTCTTGCCTCAGACAAATTT
47246 TTCTAGAAGCAAAAAATTTTGAAATTG
323 TTCTAGAAGCAAAAAATTTTGAAATTG
*
47273 TTTCACTATAAACAAAAATTCAAATAACTTGAGATTGTTTT-TCGTAAAACCAA-TTTCGTCTCG
1 TTTCACTAGAAACAAAAATTCAAATAACTTGAGATTGTTTTCTCGTAAAACCAATTTTC-TCTCG
* * * *
47336 CTT-GAGACAGTTTCCCCTT-AAAC-AAATATTTTAGAAATTGTTTCATATGAAACAAAAATTTA
65 -TTAGACACAGTTTCCCCTTGAAACGAAA-ATTTTAGAAATTGTTTCACACGAAACAAAAATTCA
* * * *
47398 TCTCACGTGATATT-ATTTTTCTTAAAATCAATTTCGTCCCTCTTGAGATAGTTTCCCTTGAAAC
128 TCTCACGTGAGATTGA-TTTTCTTAAAACCAATTTCGTCCCTCTTGAGACAGTTTCCCCTGAAAC
* * * * * * *
47462 ACAAATTTTGAAATTGTTTTACTCAAAGAAAAAAATTCTCACTTTAGCTTCTTTTTCTTAAAAAC
192 ACAAATTTTGAAATTGCTTCACTCAAACAAAAAAATTATCACCTGAGATTCTTTTTCTTAAAAAC
*
47527 CAATTTCATCTCACTTGAGACAGTTTTTTTCTTGAAACGCAAATT
257 CAATTTCATCTCACTTGAGACAGTTTTTTTCTTAAAACGCAAATT
47572 TAAGAAATAG
Statistics
Matches: 256, Mismatches: 36, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
344 18 0.07
345 32 0.12
346 29 0.11
347 109 0.43
348 29 0.11
349 39 0.15
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (349 bp):
TTTCACTAGAAACAAAAATTCAAATAACTTGAGATTGTTTTCTCGTAAAACCAATTTTCTCTCGT
TAGACACAGTTTCCCCTTGAAACGAAAATTTTAGAAATTGTTTCACACGAAACAAAAATTCATCT
CACGTGAGATTGATTTTCTTAAAACCAATTTCGTCCCTCTTGAGACAGTTTCCCCTGAAACACAA
ATTTTGAAATTGCTTCACTCAAACAAAAAAATTATCACCTGAGATTCTTTTTCTTAAAAACCAAT
TTCATCTCACTTGAGACAGTTTTTTTCTTAAAACGCAAATTCGTCTTGCCTCAGACAAATTTTTC
TAGAAGCAAAAAATTTTGAAATTG
Found at i:47807 original size:104 final size:103
Alignment explanation
Indices: 47259--47831 Score: 579
Period size: 103 Copynumber: 5.6 Consensus size: 103
47249 TAGAAGCAAA
** ** * * *
47259 AAATTTT-GAAATTGTTTCACTATAAACAAAAATTCAAATAACTTGAGATTGTTTTTCGTAAAAC
1 AAATTTTAGAAATTGTTTCACTCGAAACAAAAATTCATCTCACTTGAGATTATTTTTCTTAAAAC
*
47323 CAATTTCGTCTCGCTTGAGACAGTTTCCCCTT-AAACA-
66 CAATTTCATCTCGCTTGAGACAGTTT-CCCTTGAAACAC
* * * *
47360 AATATTTTAGAAATTGTTTCA-TATGAAACAAAAATTTATCTCACGTGATATTATTTTTCTTAAA
1 AA-ATTTTAGAAATTGTTTCACT-CGAAACAAAAATTCATCTCACTTGAGATTATTTTTCTTAAA
* * * * *
47424 ATCAATTTCGTCCCTCTTGAGATAGTTTCCCTTGAAACAC
64 ACCAATTTCATCTCGCTTGAGACAGTTTCCCTTGAAACAC
* * * * * *
47464 AAATTTT-GAAATTGTTTTACTC-AAAGAAAAA--AATTCTCACTTTAGCTTCTTTTTCTTAAAA
1 AAATTTTAGAAATTGTTTCACTCGAAACAAAAATTCA-TCTCACTTGAGATTATTTTTCTT-AAA
* ** *
47525 ACCAATTTCATCTCACTTGAGACAGTTTTTTTCTTGAAACGC
64 ACCAATTTCATCTCGCTTGAGACAG--TTTCCCTTGAAACAC
* * * * * *
47567 AAATTTAAGAAATAGTTT-ACCTCGAAACAAAATTTCAACTCACTTGAAATTGTTTTTCTTAAAA
1 AAATTTTAGAAATTGTTTCA-CTCGAAACAAAAATTCATCTCACTTGAGATTATTTTTCTTAAAA
* * *
47631 CCAATTTCTTCTTGCTTGACACAGTTTTCCCTTGAAACAC
65 CCAATTTCATCTCGCTTGAGACAG-TTTCCCTTGAAACAC
* *
47671 AAATTTTACAAATTGTTTCACTCGAAACAAAAATTCATCTCACTTGAGATTATTCTTCTTAAAAC
1 AAATTTTAGAAATTGTTTCACTCGAAACAAAAATTCATCTCACTTGAGATTATTTTTCTTAAAAC
* * *
47736 CAATTTCATCTCGCTTAAGACAATTTCCCTCGAAACAC
66 CAATTTCATCTCGCTTGAGACAGTTTCCCTTGAAACAC
* * * * *
47774 AAATTTTAGAAATTCTTTCACTCGAAACAAAAAATCTTCTTACTTGATATTTATTTTT
1 AAATTTTAGAAATTGTTTCACTCGAAACAAAAATTCATCTCACTTGAGA-TTATTTTT
47832 TTGTCTTGCA
Statistics
Matches: 386, Mismatches: 69, Indels: 31
0.79 0.14 0.06
Matches are distributed among these distances:
99 1 0.00
100 18 0.05
101 33 0.09
102 22 0.06
103 154 0.40
104 107 0.28
105 32 0.08
106 18 0.05
107 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (103 bp):
AAATTTTAGAAATTGTTTCACTCGAAACAAAAATTCATCTCACTTGAGATTATTTTTCTTAAAAC
CAATTTCATCTCGCTTGAGACAGTTTCCCTTGAAACAC
Found at i:48083 original size:101 final size:103
Alignment explanation
Indices: 47850--48104 Score: 282
Period size: 101 Copynumber: 2.5 Consensus size: 103
47840 CATGACATAA
* *
47850 TTTCCCTTGAAACAAAAATTTTAG-AATTTATTTCACTAGAAACAAAAATTTATCTCACTTAAAA
1 TTTCCCTTGAAACACAAATTTTAGAAATTT-TTTCACTAGAAACAAAAATTCA-CTCACTTAAAA
* * ** *
47914 TTATTTCTCTTAAAACCAATTTCCTCGCGCTAGTTACACT
64 TTATTTCTCTTAAAACCAATTTCATAGCGCTAGAGACACG
* * * * **
47954 TTTCCATTGAAACACAAATTTTACAAATTTTTTCACTCGAAACAAAAATTCA-TCACTTGAGTTT
1 TTTCCCTTGAAACACAAATTTTAGAAATTTTTTCACTAGAAACAAAAATTCACTCACTTAAAATT
* * ** *
48018 GTTTTTCTTAAAACCAATTTCATATTGCTTGAGACA-G
66 ATTTCTCTTAAAACCAATTTCATAGCGCTAGAGACACG
* * *
48055 TTTCCCTTGAAACACAAATTTCAGAAATTGTTTCACTTGAAACAAAAATT
1 TTTCCCTTGAAACACAAATTTTAGAAATTTTTTCACTAGAAACAAAAATT
48105 TTAGAAATTG
Statistics
Matches: 127, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
101 45 0.35
102 36 0.28
104 41 0.32
105 5 0.04
ACGTcount: A:0.36, C:0.19, G:0.07, T:0.37
Consensus pattern (103 bp):
TTTCCCTTGAAACACAAATTTTAGAAATTTTTTCACTAGAAACAAAAATTCACTCACTTAAAATT
ATTTCTCTTAAAACCAATTTCATAGCGCTAGAGACACG
Found at i:48094 original size:30 final size:30
Alignment explanation
Indices: 48054--48135 Score: 137
Period size: 30 Copynumber: 2.7 Consensus size: 30
48044 GCTTGAGACA
* *
48054 GTTTCCCTTGAAACACAAATTTCAGAAATT
1 GTTTCACTTGAAACAAAAATTTCAGAAATT
*
48084 GTTTCACTTGAAACAAAAATTTTAGAAATT
1 GTTTCACTTGAAACAAAAATTTCAGAAATT
48114 GTTTCACTTGAAACAAAAATTT
1 GTTTCACTTGAAACAAAAATTT
48136 ATTGCACTTG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (30 bp):
GTTTCACTTGAAACAAAAATTTCAGAAATT
Found at i:48196 original size:133 final size:131
Alignment explanation
Indices: 47960--48224 Score: 370
Period size: 133 Copynumber: 2.0 Consensus size: 131
47950 CACTTTTCCA
* * *
47960 TTGAAACACAAATTTTACAAATTTTTTCACTCGAAACAAAAATTCATCACTTGAGTTTGTTTTTC
1 TTGAAACAAAAATTTTACAAATTGTTTCACTCGAAACAAAAATTCATCACTTGAGATTGTTTTTC
** * * *
48025 TTAAAACCAATTTCATATTGCTTGAGACAGTTTCCCTTGAAACACAAATT-TCAGAAATTGTTTC
66 TTAAAACCAATTTCATATCACTTGAAAAAATTTCCCTTGAAACACAAATTGT-AGAAATTGTTTC
48089 AC
130 AC
* * *
48091 TTGAAACAAAAATTTTAGAAATTGTTTCACTTGAAACAAAAATTTATTGCACTTGAGATTGTTTT
1 TTGAAACAAAAATTTTACAAATTGTTTCACTCGAAACAAAAATTCA-T-CACTTGAGATTGTTTT
* * *
48156 TCTTAAAACCAATTTCGTCTCACTTGAAAAAATTTCCCTTGAAATACAAATTGTAGAAATTGTTT
64 TCTTAAAACCAATTTCATATCACTTGAAAAAATTTCCCTTGAAACACAAATTGTAGAAATTGTTT
48221 CAC
129 CAC
48224 T
1 T
48225 CAAAAATGAA
Statistics
Matches: 117, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
131 41 0.35
132 1 0.01
133 74 0.63
134 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (131 bp):
TTGAAACAAAAATTTTACAAATTGTTTCACTCGAAACAAAAATTCATCACTTGAGATTGTTTTTC
TTAAAACCAATTTCATATCACTTGAAAAAATTTCCCTTGAAACACAAATTGTAGAAATTGTTTCA
C
Found at i:48462 original size:103 final size:103
Alignment explanation
Indices: 48084--48632 Score: 517
Period size: 103 Copynumber: 5.3 Consensus size: 103
48074 TTCAGAAATT
* * * * * *
48084 GTTTCACTTGAAACAAAAATTTTAGAAATTGTTTCACTTGAAACAAAAATTTAT-TGCACTTGAG
1 GTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACGTCAAAAAAAAATTCATCT-CACTTGAG
* * *
48148 ATTGTTTTTCTTAAAACCAATTTCGTCTCACTTGAAAAA
65 ATTGTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGACA
* * * *
48187 ATTTCCCTTGAAATACAAATTGTAGAAATTGTTTCAC-TCAAAAATGAAAATTCATCTCACTTGG
1 GTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACGTCAAAAA--AAAATTCATCTCACTTGA
* *
48251 GATTTTTTTTTTCTTAAAACCAATTTCGTCTCGCCTGAGA-A
64 GA--TTGTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGACA
* * * * ** *
48292 TGTTTTCTCTTGAAACACAAAGTTTAGAAATAGTTTCA-GTCGAAAAAAAATTCAAATCACTTCA
1 -G-TTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACGTCAAAAAAAAATTCATCTCACTTGA
* * ** * *
48356 GATTGTTTTTCATAAAACCAGTTTTTTCTTGCTTGAGACG
64 GATTGTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGACA
*
48396 GTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACGT-AAAACAAAAATAT-ATCTCGCTTGA
1 GTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACGTCAAAA-AAAAAT-TCATCTCACTTGA
* * * *
48459 GATTATTTTTCTTAAAACCAATTTTGCCTCGCTTGAGGCA
64 GATTGTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGACA
* * * * * *
48499 GTTTCCCTTGAAACAAAAATTTT-GACATTGTTTCAC-TC--AAAAATATTTATCTTACTTTAGA
1 GTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACGTCAAAAAAAAATTCATCTCACTTGAGA
* * * *
48560 TT-CTTTTCTTATAACTACTTTCGTCTCGCTTGAGACA
66 TTGTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGACA
* * *
48597 GCTTTCCGTTGAAACACAAATGTTAGAAATTTTTTC
1 G-TTTCCCTTGAAACACAAATTTTAGAAATTGTTTC
48633 TATAACCCCC
Statistics
Matches: 364, Mismatches: 66, Indels: 35
0.78 0.14 0.08
Matches are distributed among these distances:
98 30 0.08
99 36 0.10
100 11 0.03
101 1 0.00
102 52 0.14
103 131 0.36
104 17 0.05
105 18 0.05
106 32 0.09
107 36 0.10
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (103 bp):
GTTTCCCTTGAAACACAAATTTTAGAAATTGTTTCACGTCAAAAAAAAATTCATCTCACTTGAGA
TTGTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGACA
Found at i:49392 original size:24 final size:24
Alignment explanation
Indices: 49365--49456 Score: 130
Period size: 24 Copynumber: 3.8 Consensus size: 24
49355 AAACGGAGAT
* *
49365 ATCAAAAATCAAAACAGAATTCAG
1 ATCAAAAATCAGAACAGAATCCAG
* *
49389 ATCAGATATCAGAACAGAATCCAG
1 ATCAAAAATCAGAACAGAATCCAG
* *
49413 ATCAGATATCAGAACAGAATCCAG
1 ATCAAAAATCAGAACAGAATCCAG
49437 ATCAAAAATCAGAACAGAAT
1 ATCAAAAATCAGAACAGAAT
49457 TCAGGTAATG
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 62 1.00
ACGTcount: A:0.52, C:0.18, G:0.13, T:0.16
Consensus pattern (24 bp):
ATCAAAAATCAGAACAGAATCCAG
Found at i:49399 original size:7 final size:6
Alignment explanation
Indices: 49379--49456 Score: 51
Period size: 7 Copynumber: 13.0 Consensus size: 6
49369 AAAATCAAAA
49379 CAGAATT CAG-AT CAGATAT CAGAA- CAGAAT CCAG-AT CAGATAT CAGAA-
1 CAGAA-T CAGAAT CAGA-AT CAGAAT CAGAAT -CAGAAT CAGA-AT CAGAAT
*
49427 CAGAAT CCAG-AT CAAAAAT CAGAA- CAGAAT
1 CAGAAT -CAGAAT C-AGAAT CAGAAT CAGAAT
49457 TCAGGTAATG
Statistics
Matches: 58, Mismatches: 2, Indels: 23
0.70 0.02 0.28
Matches are distributed among these distances:
5 23 0.40
6 11 0.19
7 24 0.41
ACGTcount: A:0.49, C:0.19, G:0.15, T:0.17
Consensus pattern (6 bp):
CAGAAT
Found at i:49448 original size:48 final size:48
Alignment explanation
Indices: 49372--49497 Score: 157
Period size: 48 Copynumber: 2.6 Consensus size: 48
49362 GATATCAAAA
* * *
49372 ATCAAAACAGAATTCAGATCAGATATCAGAACAGAATCCAGATCA-GAT
1 ATCAGAACAGAATTCAGATCAGAAATCAGAACAGAATCCAGATAATG-T
* * * *
49420 ATCAGAACAGAATCCAGATCAAAAATCAGAACAGAATTCAGGTAATGT
1 ATCAGAACAGAATTCAGATCAGAAATCAGAACAGAATCCAGATAATGT
49468 ATCAGAACAGAATTCA-AGTCAGAAATCAGA
1 ATCAGAACAGAATTCAGA-TCAGAAATCAGA
49498 TAAAATATTT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
47 1 0.01
48 65 0.97
49 1 0.01
ACGTcount: A:0.48, C:0.17, G:0.16, T:0.18
Consensus pattern (48 bp):
ATCAGAACAGAATTCAGATCAGAAATCAGAACAGAATCCAGATAATGT
Found at i:49460 original size:12 final size:12
Alignment explanation
Indices: 49377--49460 Score: 73
Period size: 12 Copynumber: 7.0 Consensus size: 12
49367 CAAAAATCAA
49377 AACAGAATTCAG
1 AACAGAATTCAG
*
49389 ATCAG-ATATCAG
1 AACAGAAT-TCAG
*
49401 AACAGAATCCAG
1 AACAGAATTCAG
*
49413 ATCAG-ATATCAG
1 AACAGAAT-TCAG
*
49425 AACAGAATCCAG
1 AACAGAATTCAG
* * *
49437 ATCAAAAATCAG
1 AACAGAATTCAG
49449 AACAGAATTCAG
1 AACAGAATTCAG
49461 GTAATGTATC
Statistics
Matches: 54, Mismatches: 14, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
11 4 0.07
12 46 0.85
13 4 0.07
ACGTcount: A:0.49, C:0.19, G:0.15, T:0.17
Consensus pattern (12 bp):
AACAGAATTCAG
Found at i:49471 original size:24 final size:24
Alignment explanation
Indices: 49372--49483 Score: 129
Period size: 24 Copynumber: 4.7 Consensus size: 24
49362 GATATCAAAA
* *
49372 ATCAAAACAGAATTCAGATCAGAT
1 ATCAGAACAGAATTCAGATAAGAT
* *
49396 ATCAGAACAGAATCCAGATCAGAT
1 ATCAGAACAGAATTCAGATAAGAT
* *
49420 ATCAGAACAGAATCCAGATCAA-AA
1 ATCAGAACAGAATTCAGAT-AAGAT
*
49444 ATCAGAACAGAATTCAGGTAATG-T
1 ATCAGAACAGAATTCAGATAA-GAT
49468 ATCAGAACAGAATTCA
1 ATCAGAACAGAATTCA
49484 AGTCAGAAAT
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
23 2 0.03
24 75 0.96
25 1 0.01
ACGTcount: A:0.48, C:0.18, G:0.15, T:0.19
Consensus pattern (24 bp):
ATCAGAACAGAATTCAGATAAGAT
Found at i:49495 original size:24 final size:25
Alignment explanation
Indices: 49365--49497 Score: 125
Period size: 24 Copynumber: 5.5 Consensus size: 25
49355 AAACGGAGAT
* *
49365 ATCAAAAATCAAAACAGAATTC-AG
1 ATCAGAAATCAGAACAGAATTCAAG
* *
49389 ATCAGATATCAGAACAGAA-TCCAG
1 ATCAGAAATCAGAACAGAATTCAAG
* *
49413 ATCAGATATCAGAACAGAA-TCCAG
1 ATCAGAAATCAGAACAGAATTCAAG
*
49437 ATCAAAAATCAGAACAGAATTC-AG
1 ATCAGAAATCAGAACAGAATTCAAG
* * *
49461 GTAATG-TATCAGAACAGAATTCAAG
1 ATCA-GAAATCAGAACAGAATTCAAG
49486 -TCAGAAATCAGA
1 ATCAGAAATCAGA
49498 TAAAATATTT
Statistics
Matches: 93, Mismatches: 11, Indels: 10
0.82 0.10 0.09
Matches are distributed among these distances:
23 3 0.03
24 86 0.92
25 4 0.04
ACGTcount: A:0.50, C:0.17, G:0.15, T:0.18
Consensus pattern (25 bp):
ATCAGAAATCAGAACAGAATTCAAG
Found at i:53247 original size:3 final size:3
Alignment explanation
Indices: 53239--53272 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
53229 TATTTTGTAT
53239 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
53273 GATTCATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:54552 original size:24 final size:24
Alignment explanation
Indices: 54518--54624 Score: 108
Period size: 24 Copynumber: 4.5 Consensus size: 24
54508 AAATGGAGAT
* *
54518 ATCAGAAATCAAAACATAATTTAG
1 ATCAGAAATCAAAACAGAATTCAG
* * *
54542 ATCAGATATCATAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAG
54566 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * * *
54590 GTAATATATCATAACAGAATTCA-
1 ATCAGAAATCAAAACAGAATTCAG
54613 AGTCAGAAATCA
1 A-TCAGAAATCA
54625 GATAAAATAT
Statistics
Matches: 65, Mismatches: 17, Indels: 2
0.77 0.20 0.02
Matches are distributed among these distances:
24 65 1.00
ACGTcount: A:0.50, C:0.16, G:0.11, T:0.22
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:54599 original size:48 final size:47
Alignment explanation
Indices: 54518--54624 Score: 142
Period size: 48 Copynumber: 2.2 Consensus size: 47
54508 AAATGGAGAT
* * *
54518 ATCAGAAATCAAAACATAATTTAGATCAGATATCATAACAGAATCCA
1 ATCAGAAATCAAAACAGAATTCAGATAAGATATCATAACAGAATCCA
* * *
54565 GATCAGAAATCAAAACAGAATTCAGGTAATATATCATAACAGAATTCA
1 -ATCAGAAATCAAAACAGAATTCAGATAAGATATCATAACAGAATCCA
54613 AGTCAGAAATCA
1 A-TCAGAAATCA
54625 GATAAAATAT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
47 1 0.02
48 51 0.98
ACGTcount: A:0.50, C:0.16, G:0.11, T:0.22
Consensus pattern (47 bp):
ATCAGAAATCAAAACAGAATTCAGATAAGATATCATAACAGAATCCA
Done.