Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold82
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: 2626005
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.31
Warning! 196346 characters in sequence are not A, C, G, or T
File 8 of 17
Found at i:965906 original size:15 final size:15
Alignment explanation
Indices: 965858--965905 Score: 73
Period size: 14 Copynumber: 3.3 Consensus size: 15
965848 CTTTTCTCTC
*
965858 TTTTTCTTTGTTTTG
1 TTTTTCTTTGTTTTT
965873 TTTTT-TTTGTTTTT
1 TTTTTCTTTGTTTTT
965887 TTTTTCTTT-TTTTT
1 TTTTTCTTTGTTTTT
965901 TTTTT
1 TTTTT
965906 TGAAGAGAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
14 23 0.74
15 8 0.26
ACGTcount: A:0.00, C:0.04, G:0.06, T:0.90
Consensus pattern (15 bp):
TTTTTCTTTGTTTTT
Found at i:978497 original size:76 final size:78
Alignment explanation
Indices: 978403--978552 Score: 223
Period size: 79 Copynumber: 1.9 Consensus size: 78
978393 TGATTATGAG
* * * * *
978403 AATAACGGGGTTGGAGTATCCCCGATGA-AG-AATTGATGTTTTGGAAATAAAACCGGGGTTGGA
1 AATAACGGGGATGGAGTATCCCCGATGAGAGAAATTAATATTTTAGAAATAAAAACGGGGTTGGA
978466 GTATCCCCTCGAA
66 GTATCCCCTCGAA
*
978479 AATAACGGGGATGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAAACGGGGTTGG
1 AATAACGGGGATGGAGTATCCCCGATGA-GAGAAATTAATATTTTAGAAATAAAAACGGGGTTGG
978544 AGTATCCCC
65 AGTATCCCC
978553 GATGATGAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
76 26 0.40
78 2 0.03
79 37 0.57
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.25
Consensus pattern (78 bp):
AATAACGGGGATGGAGTATCCCCGATGAGAGAAATTAATATTTTAGAAATAAAAACGGGGTTGGA
GTATCCCCTCGAA
Found at i:978762 original size:153 final size:153
Alignment explanation
Indices: 978484--978771 Score: 359
Period size: 153 Copynumber: 1.9 Consensus size: 153
978474 TCGAAAATAA
* *
978484 CGGGGATGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAAACGGGGTTGGAGTAT
1 CGGGGATGGAGTATCCCCGATTATGAGAAATTAATATTTGAGAAATAAAAACGGAGTTGGAGTAT
* * * *
978549 CCCCGATGATGAAAAATTAGTATTTTGGAAATACAATCGGAGTTGGAGTATCCCCGATTATAG-A
66 CCCCGATGATGAAAAATTAATATTTTAGAAATAAAACCGGAGTTGGAGTATCCCCGATTAT-GCA
978613 AAATTGGTGTTTTGAAAATAAAAC
130 AAATTGGTGTTTTGAAAATAAAAC
* * ** * *
978637 CGGGGTTGGAGTATCCCCGATTGTG-GAAAATTGGTGTTCTGAG-AATAAAATCGGAGTTGGAGT
1 CGGGGATGGAGTATCCCCGATTATGAG-AAATTAATATT-TGAGAAATAAAAACGGAGTTGGAGT
* * * * *
978700 GTCCCCGATTG-TGGAAAATTAATGTTTTAGAAGTAAAACCGGGGTTGGAGTATCCCCGATTATG
64 ATCCCCGA-TGATGAAAAATTAATATTTTAGAAATAAAACCGGAGTTGGAGTATCCCCGATTATG
978764 CAAAATTG
128 CAAAATTG
978772 AGAAAACTTG
Statistics
Matches: 114, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
152 2 0.02
153 107 0.94
154 5 0.04
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (153 bp):
CGGGGATGGAGTATCCCCGATTATGAGAAATTAATATTTGAGAAATAAAAACGGAGTTGGAGTAT
CCCCGATGATGAAAAATTAATATTTTAGAAATAAAACCGGAGTTGGAGTATCCCCGATTATGCAA
AATTGGTGTTTTGAAAATAAAAC
Found at i:978769 original size:51 final size:50
Alignment explanation
Indices: 978484--978770 Score: 308
Period size: 51 Copynumber: 5.6 Consensus size: 50
978474 TCGAAAATAA
* * * *
978484 CGGGGATGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAAA
1 CGGGGTTGGAGTATCCCCGATTATGA-AAATTAGTGTTTTAGAAATAAAAC
* * * * *
978535 CGGGGTTGGAGTATCCCCGATGATGAAAAATTAGTATTTTGGAAATACAAT
1 CGGGGTTGGAGTATCCCCGATTATG-AAAATTAGTGTTTTAGAAATAAAAC
* *
978586 CGGAGTTGGAGTATCCCCGATTATAGAAAATTGGTGTTTT-GAAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTAT-GAAAATTAGTGTTTTAG-AAATAAAAC
* * * *
978637 CGGGGTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTCT-GAGAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTAT-GAAAATTAGTGTTTTAGA-AATAAAAC
* * * * *
978688 CGGAGTTGGAGTGTCCCCGATTGTGGAAAATTAATGTTTTAGAAGTAAAAC
1 CGGGGTTGGAGTATCCCCGATTAT-GAAAATTAGTGTTTTAGAAATAAAAC
978739 CGGGGTTGGAGTATCCCCGATTATGCAAAATT
1 CGGGGTTGGAGTATCCCCGATTATG-AAAATT
978771 GAGAAAACTT
Statistics
Matches: 203, Mismatches: 27, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
50 3 0.01
51 196 0.97
52 4 0.02
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (50 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAATTAGTGTTTTAGAAATAAAAC
Found at i:978771 original size:102 final size:101
Alignment explanation
Indices: 978490--978771 Score: 370
Period size: 102 Copynumber: 2.8 Consensus size: 101
978480 ATAACGGGGA
* *
978490 TGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAAACGGGGTTGGAGTATCCCCGA
1 TGGAGTATCCCCGATTATGA-AAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGA
* * * *
978555 TGATGAAAAATTAGTATTTTGGAAATACAATCGGAGT
65 TTATGAAAAATTGGTATTCTGGAAATAAAATCGGAGT
**
978592 TGGAGTATCCCCGATTATAGAAAATTGGTGTTTT-GAAAATAAAACCGGGGTTGGAGTATCCCCG
1 TGGAGTATCCCCGATTAT-GAAAATTAATGTTTTAG-AAATAAAACCGGGGTTGGAGTATCCCCG
* * *
978656 ATTGTGGAAAATTGGTGTTCT-GAGAATAAAATCGGAGT
64 ATTATGAAAAATTGGTATTCTGGA-AATAAAATCGGAGT
* * *
978694 TGGAGTGTCCCCGATTGTGGAAAATTAATGTTTTAGAAGTAAAACCGGGGTTGGAGTATCCCCGA
1 TGGAGTATCCCCGATTAT-GAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGA
*
978759 TTATGCAAAATTG
65 TTATGAAAAATTG
978772 AGAAAACTTG
Statistics
Matches: 157, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
101 3 0.02
102 151 0.96
103 3 0.02
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (101 bp):
TGGAGTATCCCCGATTATGAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGAT
TATGAAAAATTGGTATTCTGGAAATAAAATCGGAGT
Found at i:981152 original size:13 final size:13
Alignment explanation
Indices: 981134--981159 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
981124 ACAAAGATCC
981134 ATGTATCGATACA
1 ATGTATCGATACA
981147 ATGTATCGATACA
1 ATGTATCGATACA
981160 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:981155 original size:33 final size:33
Alignment explanation
Indices: 981113--981179 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
981103 AAAATTTCCA
***
981113 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
981146 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
981179 A
1 A
981180 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:981223 original size:19 final size:18
Alignment explanation
Indices: 981199--981266 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
981189 CAGTAGCTAA
981199 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
981218 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
981233 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
981250 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
981267 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:981239 original size:13 final size:13
Alignment explanation
Indices: 981221--981245 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
981211 ACAATACTTA
981221 TGTATCGATACAT
1 TGTATCGATACAT
981234 TGTATCGATACA
1 TGTATCGATACA
981246 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:981243 original size:32 final size:32
Alignment explanation
Indices: 981202--981264 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
981192 TAGCTAATTA
*
981202 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
981234 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
981265 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:981346 original size:21 final size:21
Alignment explanation
Indices: 981322--981378 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
981312 CATTTGTAGG
981322 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
981343 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
981364 ATGTATCGATACATT
1 ATGTATCGATACATT
981379 TAAATTTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:981393 original size:1 final size:1
Alignment explanation
Indices: 981383--981452 Score: 95
Period size: 1 Copynumber: 70.0 Consensus size: 1
981373 TACATTTAAA
* * ***
981383 TTTTTATTTTTATTTTTTTTTTTTTTTTTTTTTTTTTTTTTTCAATTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
981448 TTTTT
1 TTTTT
981453 CAAACACTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
1 62 1.00
ACGTcount: A:0.06, C:0.01, G:0.00, T:0.93
Consensus pattern (1 bp):
T
Found at i:981453 original size:28 final size:28
Alignment explanation
Indices: 981400--981455 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
981390 TTTTATTTTT
981400 TTTTTTTTTTTTTTTTTTTTTTTTTCAA
1 TTTTTTTTTTTTTTTTTTTTTTTTTCAA
981428 TTTTTTTTTTTTTTTTTTTTTTTTTCAA
1 TTTTTTTTTTTTTTTTTTTTTTTTTCAA
981456 ACACTTTATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.07, C:0.04, G:0.00, T:0.89
Consensus pattern (28 bp):
TTTTTTTTTTTTTTTTTTTTTTTTTCAA
Found at i:985052 original size:54 final size:54
Alignment explanation
Indices: 984988--985095 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 54
984978 AGGGCAGAAA
*
984988 GAGCATAGGGAGTTCTGCTCATGCCTCGATTGGCAAAGGTCATAGACTTTTCAC
1 GAGCATAGGGAGTTCTGCTCATGCCTCGATTGGCAAAAGTCATAGACTTTTCAC
*
985042 GAGCATAGGGAGTTCTGCTCATGCTTCGATTGGCAAAAGTCATAGACTTTTCAC
1 GAGCATAGGGAGTTCTGCTCATGCCTCGATTGGCAAAAGTCATAGACTTTTCAC
985096 ACTTAAATAC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (54 bp):
GAGCATAGGGAGTTCTGCTCATGCCTCGATTGGCAAAAGTCATAGACTTTTCAC
Found at i:985670 original size:62 final size:61
Alignment explanation
Indices: 985600--986978 Score: 1223
Period size: 62 Copynumber: 22.4 Consensus size: 61
985590 CCCCTTTTAG
* ** * *
985600 CCTTTTAGTCCTCAAAGAGTAAAACGCATTTTTCTTTTCAAAGCTCACATGAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGC-TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * *
985662 CCTTTTAGTCCTCCAAA-AGAAGGATAC-CTTTTTCTTTTCAAAACTCACACGAGTTGGTGGCA
1 CCTTTTAGTCCT-CAAAGAGCAGG--ACGCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * * * * * * *
985724 CCCTCTAGTCTTCAAAGAGCAAGACATCTTTTTCTTTTCAAAGCCTATACGAGTTGATGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGAC-GCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * ** *
985786 CCTTCTAGTCCTCAAAGAGCCGGACG-TCTTTTCTTTTCAAAGCTTACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCT-TTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * * * * * * *
985847 CCCCTCTAGTCCTCAAATAGTAGGACACCTTTTTCTTTT-AAAGCCCATACTAGTTGGTGGTA
1 -CCTTTTAGTCCTCAAAGAGCAGGAC-GCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * * * * *
985909 ACTTTTAGTTCTTAAAGAGCAGGACGCCTTTTTTCTTTTCAAAGCTCACACAAGCTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACG-C-TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * * * * *
985972 CCTTTTAAGTCCTCAAAGAGCAGGGCGCTTTTCCTTTTTAAAGGCCACACAAGTTGGTAGCA
1 CCTTTT-AGTCCTCAAAGAGCAGGACGCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * * *
986034 CCTTTTAGTCCTCAAAAAGCATGACG-TCTTTTCTTTT-AAAGCTCATA-GAGGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCT-TTTTCTTTTCAAAGCCCACACGA-GTTGGTGGCA
* * *
986094 CCTTTTAGTCCTCAAAGAGTAGGACGTCTTTTTCTTTTTAAAGCCCACACGAGTTTGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACG-CTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * * * * **
986156 TCCTTTT-GTCCTCAAAGAGCAGGACACCTTTTTCTATTCAAAGTCCACATGAGTTAGTGGTG
1 -CCTTTTAGTCCTCAAAGAGCAGGAC-GCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * *
986218 TC-TTTAGTCCTCAAAAAG--GGACGTCTTTTTCTTTTCAAAGCCCATACGAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACG-CTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * * * *
986277 CCCTTTT-GCCCTTAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACATGAATTGGTAGCA
1 -CCTTTTAGTCCTCAAAGAGCAGGACG-CTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * *
986339 TCC-TTTCGTCCTCAAAGAGCAGGATGCTTTTT-TCTTTCAAAGCCCACATGAGTTGGTGGCA
1 -CCTTTTAGTCCTCAAAGAGCAGGACGCTTTTTCT-TTTCAAAGCCCACACGAGTTGGTGGCA
* * * * * * * *
986400 CCCTTTAGTCCTTAAAGAGTAGGATGCCTTTTTCTTTTTAAAGCTCACACAAGTTGGTAGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACG-CTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * * * * *
986462 TCC-TTTAGTCCTCAAAAAGTAGGATGATTTTTTCTTTTTAAAGCCCACACGAGTTGGTAGCA
1 -CCTTTTAGTCCTCAAAGAGCAGGACG-CTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * * * *
986524 CCCTTTAGTCCTCAAAAAGCAGGATGCCTTTTTC-TTTCAAAGCCTATACGAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACG-CTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * * * * *
986585 CCCTTTAGTCCTTAAAGAGTAGGATGCATTTTTCTTTTCAAAGCTCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGC-TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * ** * * * *
986647 TCC-TTTAGTCCTCAAAAAGTAGGATTCTTTTTTCTTTTTAAAGCCCACGCGTGTTGGTAGCCA
1 -CCTTTTAGTCCTCAAAGAGCAGGACGC-TTTTTCTTTTCAAAGCCCACACGAGTTGGT-GGCA
* * *
986710 CC-TTTAGTCCTCAAAGAGTAGGATG-TCTTTTCCTTTCAAAGCCCACACGAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCT-TTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * * * * * *
986770 CCCTTTGGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTGAAAGCCCACATGAGTTGGTGGTA
1 CCTTTTAGTCCTCAAAGAGCAGGACG-CTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * * * *
986832 CCTTTTAGTCCTCAAAGAGCATGACACCTTTTTCTTTCCAAAGCCCACACAAGTTGGTGGTA
1 CCTTTTAGTCCTCAAAGAGCAGGAC-GCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * * * * * *
986894 CCCTTTAGTCCTCAAAGCGTATGATGCCTTTTT-TTTTCAAAGCTCACACGAGTTGATGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACG-CTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
*
986955 CATTTTAGTCCTCAAAGAGCAGGA
1 CCTTTTAGTCCTCAAAGAGCAGGA
986979 TACCTTATCC
Statistics
Matches: 1089, Mismatches: 183, Indels: 91
0.80 0.13 0.07
Matches are distributed among these distances:
59 33 0.03
60 66 0.06
61 297 0.27
62 618 0.57
63 55 0.05
64 20 0.02
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (61 bp):
CCTTTTAGTCCTCAAAGAGCAGGACGCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
Found at i:985928 original size:185 final size:185
Alignment explanation
Indices: 985629--986984 Score: 1301
Period size: 185 Copynumber: 7.3 Consensus size: 185
985619 TAAAACGCAT
* * * * *
985629 TTTTCTTTTCAAAGCTCACATGAGTTGGTGGCACCTTTTAGTCCTCCAAA-AGAAGGATACCTTT
1 TTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCT-CAAAGAGTAGGATGCCTTT
* * * * *
985693 TTCTTTTCAAAACTCACACGAGTTGGTGGCACCCTCTAGTCTTCAAAGAGCAAGACATCTTTTTC
65 TTCTTTTCAAAGCTCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACATCTTTTTC
* * * * * *
985758 TTTTCAAAGCCTATACGAGTTGATGGCA-CCTTCTAGTCCTCAAAGAGCCGGACGTC
130 TTTTCAAAGCCCACACGAGTTGGTGGCACCCTT-TAGTCCTCAAAGAGCAGGATGCC
** * * * **
985814 TTTTCTTTTCAAAGCTTACACAAGTTGGTGGCACCCCTCTAGTCCTCAAATAGTAGGACACCTTT
1 TTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA-CCCTTTAGTCCTCAAAGAGTAGGATGCCTTT
* * * * * * * **
985879 TTCTTTT-AAAGCCCATACTAGTTGGTGGTAACTTTTAGTTCTTAAAGAGCAGGACGCCTTTTTT
65 TTCTTTTCAAAGCTCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACATC-TTTTT
* * * *
985943 CTTTTCAAAGCTCACACAAGCTGGTGGCACCTTTTAAGTCCTCAAAGAGCAGG--GCGC
129 CTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTT-AGTCCTCAAAGAGCAGGATGC-C
* * * * * * * * * *
986000 TTTTCCTTTTTAAAGGCCACACAAGTTGGTAGCACCTTTTAGTCCTCAAAAAGCATGACGTC-TT
1 TTTT-CTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGATGCCTTT
* * *
986064 TTCTTTT-AAAGCTCATA-GAGGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGTCTTTTT
65 TTCTTTTCAAAGCTCACACGA-GTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACATCTTTTT
* * * * **
986127 CTTTTTAAAGCCCACACGAGTTTGTGGCATCCTTTTGTCCTCAAAGAGCAGGACACC
129 CTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* * * * *** * * *
986184 TTTTTCTATTCAAAGTCCACATGAGTTAGTGG-TGTCTTTAGTCCTCAAAAAG--GGACGTCTTT
1 -TTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGATGCCTTT
* * * * **
986246 TTCTTTTCAAAGCCCATACGAGTTGGTGGCACCCTTTT-GCCCTTAAAGAGCAGGACGCCTTTTT
65 TTCTTTTCAAAGCTCACACGAGTTGGTGGCA-CCTTTTAGTCCTCAAAGAGCAGGACATCTTTTT
* * * * *
986310 CTTTTCAAAGCCCACATGAATTGGTAGCATCCTTTCGTCCTCAAAGAGCAGGATG-C
129 CTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* * *
986366 TTTTTTCTTTCAAAGCCCACATGAGTTGGTGGCACCCTTTAGTCCTTAAAGAGTAGGATGCCTTT
1 TTTTCT-TTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGATGCCTTT
* * * * * *
986431 TTCTTTTTAAAGCTCACACAAGTTGGTAGCATCC-TTTAGTCCTCAAAAAGTAGGATGAT-TTTT
65 TTCTTTTCAAAGCTCACACGAGTTGGTGGCA-CCTTTTAGTCCTCAAAGAGCAGGA-CATCTTTT
* * *
986494 TCTTTTTAAAGCCCACACGAGTTGGTAGCACCCTTTAGTCCTCAAAAAGCAGGATGCC
128 TCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* * * *
986552 TTTT-TCTTTCAAAGCCTATACGAGTTGGTGGCACCCTTTAGTCCTTAAAGAGTAGGATGCATTT
1 TTTTCT-TTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGATGCCTTT
* * * *
986616 TTCTTTTCAAAGCTCACACAAGTTGGTGGCATCC-TTTAGTCCTCAAAAAGTAGGA-TTCTTTTT
65 TTCTTTTCAAAGCTCACACGAGTTGGTGGCA-CCTTTTAGTCCTCAAAGAGCAGGACATC-TTTT
* * * * * *
986679 TCTTTTTAAAGCCCACGCGTGTTGGTAGC-CACCTTTAGTCCTCAAAGAGTAGGATGTC
128 TCTTTTCAAAGCCCACACGAGTTGGTGGCAC-CCTTTAGTCCTCAAAGAGCAGGATGCC
* * *
986737 TTTTCCTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTGGTCCTCAAAGAGCAGGATGCCTTTT
1 TTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGATGCCTTTT
* * * * * * *
986802 CCTTTTGAAAGCCCACATGAGTTGGTGGTACCTTTTAGTCCTCAAAGAGCATGACACCTTTTTCT
66 TCTTTTCAAAGCTCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACATCTTTTTCT
* * * * * *
986867 TTCCAAAGCCCACACAAGTTGGTGGTACCCTTTAGTCCTCAAAGCGTATGATGCC
131 TTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* * * ** * *
986922 TTTTTTTTTCAAAGCTCACACGAGTTGATGGCACATTTTAGTCCTCAAAGAGCAGGATACCTT
1 TTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGATGCCTT
986985 ATCCTTTTTT
Statistics
Matches: 980, Mismatches: 162, Indels: 58
0.82 0.14 0.05
Matches are distributed among these distances:
181 11 0.01
182 32 0.03
183 136 0.14
184 69 0.07
185 598 0.61
186 91 0.09
187 43 0.04
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.33
Consensus pattern (185 bp):
TTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGATGCCTTTT
TCTTTTCAAAGCTCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACATCTTTTTCT
TTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
Found at i:986984 original size:123 final size:124
Alignment explanation
Indices: 985603--986984 Score: 1308
Period size: 123 Copynumber: 11.2 Consensus size: 124
985593 CTTTTAGCCT
** * * * * *
985603 TTTAGTCCTCAAAGAGTAAAACGCATTTTTCTTTTCAAAGCTCACATGAGTTGGTGGCACCTTTT
1 TTTAGTCCTCAAAGAGTAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTT
* * *
985668 AGTCCTCCAAA-AGAAGGATACCTTTTTCTTTTCAAAACTCACACGAGTTGGTGGCACCC
66 AGTCCT-CAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCTCACACGAGTTGGTGGCACCC
* * * * * * * *
985727 TCTAGTCTTCAAAGAGCAAGACATCTTTTTCTTTTCAAAGCCTATACGAGTTGATGGCA-CCTTC
1 TTTAGTCCTCAAAGAGTAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTT-
* * * * *
985791 TAGTCCTCAAAGAGCCGGACGTC-TTTTCTTTTCAAAGCTTACACAAGTTGGTGGCACCCC
65 TAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCTCACACGAGTTGGTGGCA-CCC
* * * * * * *
985851 TCTAGTCCTCAAATAGTAGGACACCTTTTTCTTTT-AAAGCCCATACTAGTTGGTGGTAACTTTT
1 TTTAGTCCTCAAAGAGTAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTT
* * * * * *
985915 AGTTCTTAAAGAGCAGGACGCCTTTTTTCTTTTCAAAGCTCACACAAGCTGGTGGCACCT
66 AGTCCTCAAAGAGCAGGATGCC-TTTTTCTTTTCAAAGCTCACACGAGTTGGTGGCACCC
* * * * * * * * *
985975 TTTAAGTCCTCAAAGAGCAGGGC-GCTTTTCCTTTTTAAAGGCCACACAAGTTGGTAGCACCTTT
1 TTT-AGTCCTCAAAGAGTAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTT
* * * * * *
986039 TAGTCCTCAAAAAGCATGACGTC-TTTTCTTTT-AAAGCTCATA-GAGGTTGGTGGCACCT
65 TAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCTCACACGA-GTTGGTGGCACCC
** * * *
986097 TTTAGTCCTCAAAGAGTAGGACGTCTTTTTCTTTTTAAAGCCCACACGAGTTTGTGGCATCCTTT
1 TTTAGTCCTCAAAGAGTAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTT
* ** * * * ***
986162 TGTCCTCAAAGAGCAGGACACCTTTTTCTATTCAAAG-TCCACATGAGTTAGTGG-TGTC
66 AGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCT-CACACGAGTTGGTGGCACCC
* ** *
986220 TTTAGTCCTCAAAAAG--GGACGTCTTTTTCTTTTCAAAGCCCATACGAGTTGGTGGCACCCTTT
1 TTTAGTCCTCAAAGAGTAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTT
* * * * * * * * *
986283 TGCCCTTAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACATGAATTGGTAGCATCC
66 AGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCTCACACGAGTTGGTGGCACCC
* * ** * *
986342 TTTCGTCCTCAAAGAGCAGGATGCTTTTTTC-TTTCAAAGCCCACATGAGTTGGTGGCACCCTTT
1 TTTAGTCCTCAAAGAGTAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTT
* * * * * *
986406 AGTCCTTAAAGAGTAGGATGCCTTTTTCTTTTTAAAGCTCACACAAGTTGGTAGCATCC
66 AGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCTCACACGAGTTGGTGGCACCC
* * * * *
986465 TTTAGTCCTCAAAAAGTAGGATGA-TTTTTTCTTTTTAAAGCCCACACGAGTTGGTAGCACCCTT
1 TTTAGTCCTCAAAGAGTAGGA-CACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTT
* *
986529 TAGTCCTCAAAAAGCAGGATGCCTTTTTC-TTTCAAAGC-CTATACGAGTTGGTGGCACCC
65 TAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCTC-ACACGAGTTGGTGGCACCC
* ** * * * *
986588 TTTAGTCCTTAAAGAGTAGGATGCATTTTTCTTTTCAAAGCTCACACAAGTTGGTGGCATCCTTT
1 TTTAGTCCTCAAAGAGTAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTT
* * * * * * * * *
986653 AGTCCTCAAAAAGTAGGATTCTTTTTTCTTTTTAAAGCCCACGCGTGTTGGTAGC-CACC
66 AGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCTCACACGAGTTGGTGGCAC-CC
*** *
986712 TTTAGTCCTCAAAGAGTAGGATGTC-TTTTCCTTTCAAAGCCCACACGAGTTGGTGGCACCCTTT
1 TTTAGTCCTCAAAGAGTAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTT
* * * * * * *
986776 GGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTGAAAGCCCACATGAGTTGGTGGTACCT
66 AGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCTCACACGAGTTGGTGGCACCC
* * * * *
986835 TTTAGTCCTCAAAGAGCATGACACCTTTTTCTTTCCAAAGCCCACACAAGTTGGTGGTACCCTTT
1 TTTAGTCCTCAAAGAGTAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTT
* * * * **
986900 AGTCCTCAAAGCGTATGATGCCTTTTT-TTTTCAAAGCTCACACGAGTTGATGGCACAT
66 AGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCTCACACGAGTTGGTGGCACCC
* *
986958 TTTAGTCCTCAAAGAGCAGGATACCTT
1 TTTAGTCCTCAAAGAGTAGGACACCTT
986985 ATCCTTTTTT
Statistics
Matches: 1043, Mismatches: 188, Indels: 55
0.81 0.15 0.04
Matches are distributed among these distances:
121 106 0.10
122 91 0.09
123 466 0.45
124 290 0.28
125 90 0.09
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (124 bp):
TTTAGTCCTCAAAGAGTAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTT
AGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCTCACACGAGTTGGTGGCACCC
Found at i:987092 original size:42 final size:39
Alignment explanation
Indices: 986958--987142 Score: 160
Period size: 42 Copynumber: 4.5 Consensus size: 39
986948 GATGGCACAT
* *
986958 TTTAGTCCTCAAAGAGCAGGATACCTTA--TCCTTTTTTCC
1 TTTA-TCCTCAAAGAGCAGGACACTTTATTTCC-TTTTTCC
* *
986997 TTTATCCTCGAAGAGCATGATGCACTTTATTTCCTTTTTTTCC
1 TTTATCCTCAAAGAGCAGGA--CACTTTATTTCC--TTTTTCC
* * *
987040 TTTGTTCTCAAAGAGCAGGACACATTTCGTTCTCCTTTTTCC
1 TTTATCCTCAAAGAGCAGGACAC-TTT-ATT-TCCTTTTTCC
987082 TTTATCCTCAAAGAGCAAGG-CGTACTTTATTTCCTTTTCTCC
1 TTTATCCTCAAAGAGC-AGGAC--ACTTTATTTCCTTTT-TCC
*
987124 TTTGTCCTCAAAGAGCAGG
1 TTTATCCTCAAAGAGCAGG
987143 CGCACTTTTA
Statistics
Matches: 121, Mismatches: 13, Indels: 22
0.78 0.08 0.14
Matches are distributed among these distances:
38 14 0.12
39 4 0.03
40 5 0.04
41 13 0.11
42 48 0.40
43 32 0.26
44 5 0.04
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.40
Consensus pattern (39 bp):
TTTATCCTCAAAGAGCAGGACACTTTATTTCCTTTTTCC
Found at i:987153 original size:42 final size:41
Alignment explanation
Indices: 986986--987150 Score: 172
Period size: 42 Copynumber: 3.9 Consensus size: 41
986976 GGATACCTTA
* **
986986 TCCTTTTTTCCTTTATCCTCGAAGAGCATGATGCACTTTATT
1 TCCTTTTTTCCTTTATCCTCAAAGAGCA-GGCGCACTTTATT
* * * *
987028 TCCTTTTTTTCCTTTGTTCTCAAAGAGCAGG-ACACATTTCGTT
1 TCC-TTTTTTCCTTTATCCTCAAAGAGCAGGCGCAC-TTT-ATT
*
987071 CTCC-TTTTTCCTTTATCCTCAAAGAGCAAGGCGTACTTTATT
1 -TCCTTTTTTCCTTTATCCTCAAAGAGC-AGGCGCACTTTATT
* *
987113 TCCTTTTCTCCTTTGTCCTCAAAGAGCAGGCGCACTTT
1 TCCTTTTTTCCTTTATCCTCAAAGAGCAGGCGCACTTT
987151 TATCCTTGAA
Statistics
Matches: 102, Mismatches: 14, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
41 16 0.16
42 51 0.50
43 30 0.29
44 5 0.05
ACGTcount: A:0.19, C:0.26, G:0.13, T:0.42
Consensus pattern (41 bp):
TCCTTTTTTCCTTTATCCTCAAAGAGCAGGCGCACTTTATT
Found at i:987964 original size:50 final size:49
Alignment explanation
Indices: 987906--988141 Score: 339
Period size: 50 Copynumber: 4.7 Consensus size: 49
987896 TTTCACAATC
* *
987906 TGTATTGATACATTCTTCATTGTATCGATACATTCTGAGTTTTACTCAAA
1 TGTATTGATACATTTTTCATTGTATCGATACATTCTGAGTTTTAC-CAGA
*
987956 TGTATTGATACATTTTTCATTGTATCGATACATTTTGAGTTTTACCCAGA
1 TGTATTGATACATTTTTCATTGTATCGATACATTCTGAGTTTTA-CCAGA
*
988006 TGTATTGATACATTTTTCATTGTATCAATACATTCTGAGTTTTACCGAGA
1 TGTATTGATACATTTTTCATTGTATCGATACATTCTGAGTTTTACC-AGA
*
988056 TGTATTGATACATTTTTCATTGTATCGATACATTCTGGGTTTTAACCTAGA
1 TGTATTGATACATTTTTCATTGTATCGATACATTCTGAGTTTT-ACC-AGA
* **
988107 TGTATCGATAC-TTTTCTCAACGTATCGATACATTC
1 TGTATTGATACATTTT-TCATTGTATCGATACATTC
988142 AGTCATTTTT
Statistics
Matches: 171, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
49 2 0.01
50 135 0.79
51 34 0.20
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.44
Consensus pattern (49 bp):
TGTATTGATACATTTTTCATTGTATCGATACATTCTGAGTTTTACCAGA
Found at i:990618 original size:79 final size:78
Alignment explanation
Indices: 990441--990740 Score: 306
Period size: 79 Copynumber: 3.8 Consensus size: 78
990431 TTTCATCTCG
* * * *
990441 AGGATACTCTAATCTTGATTTTATTTTTAAAACA-CTGATTTTCCACCATC-GGGATACTCC-AA
1 AGGATACTCCAACCCTGATTTTATTTCTAAAACATC-GATTTTCCACCATCGGGGATACTCCAAA
*
990503 CCTCGTTATTTCTGAG
65 CC-CGTTATTTC-GAA
* * *
990519 GGGATACTCCAACTCC-GATTTTATTTCCAAAACA-CTGATTTTCCACCATCGGAGATACTCCAA
1 AGGATACTCCAAC-CCTGATTTTATTTCTAAAACATC-GATTTTCCACCATCGGGGATACTCCAA
990582 ACCCGTTATTTTCGAA
64 ACCCGTTA-TTTCGAA
* * * * * * *
990598 AGGATACTCCAACCCTGATTTTATTTTTGAAACATCGATTTTTCATCATCGGGGATTCTTCAACC
1 AGGATACTCCAACCCTGATTTTATTTCTAAAACATCGATTTTCCACCATCGGGGATACTCCAAAC
*
990663 CCATTATTTCGAAA
66 CCGTTATTTCG-AA
* * * * *
990677 AAGATACTCCAACCCCGATTTTATTTCTAAAATATCAATTTTCCACCATTGGGGATACT-CAAAC
1 AGGATACTCCAACCCTGATTTTATTTCTAAAACATCGATTTTCCACCATCGGGGATACTCCAAAC
990741 TTGGTTTTAT
Statistics
Matches: 185, Mismatches: 30, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
78 53 0.29
79 123 0.66
80 9 0.05
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.34
Consensus pattern (78 bp):
AGGATACTCCAACCCTGATTTTATTTCTAAAACATCGATTTTCCACCATCGGGGATACTCCAAAC
CCGTTATTTCGAA
Found at i:990734 original size:158 final size:156
Alignment explanation
Indices: 990441--990740 Score: 363
Period size: 158 Copynumber: 1.9 Consensus size: 156
990431 TTTCATCTCG
* * * *
990441 AGGATACTCTAATCTTGATTTTATTTTTAAAACACTGATTTTCCACCATCGGGATACTCCAACCT
1 AGGATACTCCAACCCTGATTTTATTTTTAAAACACTGATTTTCCACCATCGGGATACTCCAACCC
* *** * *
990506 CGTTATTTCTGAGGGGATACTCCAACTCCGATTTTATTTCCAAAACACTGATTTTCCACCATCGG
66 CATTATTTCTGAAAAGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTCCACCATCGG
990571 AGATACTCCAAACCCGTTATTTTCGAA
131 AGATACT-CAAACCCGTTATTTTCGAA
* * * * *
990598 AGGATACTCCAACCCTGATTTTATTTTTGAAACA-TCGATTTTTCATCATCGGGGATTCTTCAAC
1 AGGATACTCCAACCCTGATTTTATTTTTAAAACACT-GATTTTCCACCATC-GGGATACTCCAAC
* *
990662 CCCATTATTTC-GAAAAAGATACTCCAACCCCGATTTTATTTCTAAAATA-TCAATTTTCCACCA
64 CCCATTATTTCTG-AAAAGATACTCCAACCCCGATTTTATTTCCAAAACACT-AATTTTCCACCA
* *
990725 TTGGGGATACTCAAAC
127 TCGGAGATACTCAAAC
990741 TTGGTTTTAT
Statistics
Matches: 120, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
156 1 0.01
157 49 0.41
158 70 0.58
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.34
Consensus pattern (156 bp):
AGGATACTCCAACCCTGATTTTATTTTTAAAACACTGATTTTCCACCATCGGGATACTCCAACCC
CATTATTTCTGAAAAGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTCCACCATCGG
AGATACTCAAACCCGTTATTTTCGAA
Found at i:990839 original size:79 final size:79
Alignment explanation
Indices: 990727--991130 Score: 344
Period size: 79 Copynumber: 5.1 Consensus size: 79
990717 TTCCACCATT
* * * * * * *
990727 GGGGATACTC-AAACTTGGTTTTATTTCTAAAACATCAATTTTTCATAATCGATGATACTCTAAC
1 GGGGATACTCTAACCTCGATTTTATTTCTAAAACATCGATTTTTCACAATC-AAGATACTCCAAC
990791 C-CTGTTATTTTC-AA
65 CTC-GTTATTTTCGAA
* * *
990805 GGGGATACTCTAACCTCAATTTTATTTCTGAAACATCGATTTTTCATC-ATCTAAGATACTCAAA
1 GGGGATACTCTAACCTCGATTTTATTTCTAAAACATCGATTTTTCA-CAATC-AAGATACTC-CA
*
990869 ACCTTGTTATTTTCGAA
63 ACCTCGTTATTTTCGAA
* * * * * *
990886 -GAGATACTCTAGCC-CTGGTTTTATTTCTAAAATATTGATTTTTCACAATCAGGGATACTCCAA
1 GGGGATACTCTAACCTC-GATTTTATTTCTAAAACATCGATTTTTCACAATCA-AGATACTCCAA
*
990949 CCTCGTTA-TTTCTAA
64 CCTCGTTATTTTCGAA
* * * * * * * *
990964 AGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATCAAAAATACTCCAAT
1 GGGGATACTCTAACCTCGATTTTATTTCTAAAACATCGATTTTTCACAATC-AAGATACTCCAAC
991029 CTCGTTATTTTCG-A
65 CTCGTTATTTTCGAA
* * * **
991043 GGGGATACTCTAACCTCGATTTTATTT-TCAAACACCGATTTTTCACCATCGGGGATACTCCAA-
1 GGGGATACTCTAACCTCGATTTTATTTCTAAAACATCGATTTTTCACAATC-AAGATACTCCAAC
*
991106 CTCCGTTATTCTCG-A
65 CT-CGTTATTTTCGAA
*
991121 GAGGATACTC
1 GGGGATACTC
991131 CGAGGAAATA
Statistics
Matches: 267, Mismatches: 46, Indels: 26
0.79 0.14 0.08
Matches are distributed among these distances:
77 2 0.01
78 65 0.24
79 133 0.50
80 65 0.24
81 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.36
Consensus pattern (79 bp):
GGGGATACTCTAACCTCGATTTTATTTCTAAAACATCGATTTTTCACAATCAAGATACTCCAACC
TCGTTATTTTCGAA
Found at i:990992 original size:31 final size:28
Alignment explanation
Indices: 990936--990995 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 28
990926 TTTCACAATC
*
990936 AGGGATACTCCAACCTCGTTATTTCTAA
1 AGGGATACTCCAACCCCGTTATTTCTAA
990964 AGGGATACTCCAACCCCGGTTTTATTTCTAA
1 AGGGATACTCCAACCCC-G--TTATTTCTAA
990995 A
1 A
990996 ACACCAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 16 0.57
29 1 0.04
31 11 0.39
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (28 bp):
AGGGATACTCCAACCCCGTTATTTCTAA
Found at i:994664 original size:20 final size:20
Alignment explanation
Indices: 994641--994689 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
994631 ACGCTCTTAT
994641 GCATCGATACATTTTATAAA
1 GCATCGATACATTTTATAAA
994661 GCATCGATACATTTTATAAA
1 GCATCGATACATTTTATAAA
*
994681 GTATCGATA
1 GCATCGATA
994690 AAATGCATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (20 bp):
GCATCGATACATTTTATAAA
Found at i:995636 original size:13 final size:13
Alignment explanation
Indices: 995618--995643 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
995608 CAATTTTTTG
995618 TGTATCGATACAT
1 TGTATCGATACAT
995631 TGTATCGATACAT
1 TGTATCGATACAT
995644 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:996392 original size:21 final size:21
Alignment explanation
Indices: 996351--996394 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
996341 CTCCCCTTTA
* *
996351 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
996372 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
996393 TC
1 TC
996395 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:998215 original size:13 final size:13
Alignment explanation
Indices: 998197--998222 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
998187 ATAATCACCC
998197 TGTATCGATACAA
1 TGTATCGATACAA
998210 TGTATCGATACAA
1 TGTATCGATACAA
998223 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:998233 original size:20 final size:20
Alignment explanation
Indices: 998208--998286 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
998198 GTATCGATAC
998208 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
998228 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
998253 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
998273 CATGTATCGATACA
1 AATGTATCGATACA
998287 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:1000321 original size:15 final size:15
Alignment explanation
Indices: 1000301--1000331 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1000291 ATTTCGTTTG
*
1000301 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1000316 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1000331 G
1 G
1000332 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1002164 original size:21 final size:21
Alignment explanation
Indices: 1002135--1002179 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1002125 AAGTTTTCAT
*
1002135 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1002155 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1002177 TTT
1 TTT
1002180 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1004406 original size:13 final size:13
Alignment explanation
Indices: 1004388--1004413 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1004378 CAATTTTTTG
1004388 TGTATCGATACAT
1 TGTATCGATACAT
1004401 TGTATCGATACAT
1 TGTATCGATACAT
1004414 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1005850 original size:13 final size:13
Alignment explanation
Indices: 1005832--1005856 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1005822 CATTTTATGG
1005832 TGTATCGATACAA
1 TGTATCGATACAA
1005845 TGTATCGATACA
1 TGTATCGATACA
1005857 TACTTTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1005872 original size:32 final size:33
Alignment explanation
Indices: 1005809--1005876 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1005799 CATTACAAGC
*
1005809 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATCTTATGGTGTATCGATA
1005842 CAATGTATCGATACATACTT-T-GTGTATCGATA
1 CAATGTATCGATACAT-CTTATGGTGTATCGATA
1005874 CAA
1 CAA
1005877 GTTTGGCTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 14 0.42
33 17 0.52
34 2 0.06
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (33 bp):
CAATGTATCGATACATCTTATGGTGTATCGATA
Found at i:1007245 original size:20 final size:21
Alignment explanation
Indices: 1007208--1007255 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
1007198 TAATAAGATA
* * *
1007208 TTATAGTTATTATTTTAAAAT
1 TTATAATTTTTATATTAAAAT
*
1007229 TT-TAATTTTTATATTAATAT
1 TTATAATTTTTATATTAAAAT
1007249 TTATAAT
1 TTATAAT
1007256 AGATATTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TTATAATTTTTATATTAAAAT
Found at i:1007263 original size:13 final size:12
Alignment explanation
Indices: 1007231--1007302 Score: 78
Period size: 13 Copynumber: 6.1 Consensus size: 12
1007221 TTTAAAATTT
* *
1007231 TAATTTTTATAT
1 TAATATTTATAA
1007243 TAATATTTATAA
1 TAATATTTATAA
1007255 TAGATATTTATAA
1 TA-ATATTTATAA
*
1007268 TAATTAATTATAA
1 TAA-TATTTATAA
1007281 TAATATTTAT--
1 TAATATTTATAA
1007291 T-ATATTTATAA
1 TAATATTTATAA
1007302 T
1 T
1007303 TAAAATAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
9 8 0.15
10 1 0.02
11 1 0.02
12 19 0.37
13 23 0.44
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (12 bp):
TAATATTTATAA
Found at i:1007264 original size:25 final size:24
Alignment explanation
Indices: 1007231--1007302 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 24
1007221 TTTAAAATTT
*
1007231 TAATTTTTATATTAATATTTATAA
1 TAATATTTATATTAATATTTATAA
* *
1007255 TAGATATTTATAATAATTAATTATAA
1 TA-ATATTTATATTAA-TATTTATAA
1007281 TAATA-TT-TATT-ATATTTATAA
1 TAATATTTATATTAATATTTATAA
1007302 T
1 T
1007303 TAAAATAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
21 9 0.22
22 1 0.02
23 3 0.07
24 4 0.10
25 14 0.34
26 10 0.24
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (24 bp):
TAATATTTATATTAATATTTATAA
Found at i:1007283 original size:16 final size:16
Alignment explanation
Indices: 1007264--1007344 Score: 53
Period size: 16 Copynumber: 5.1 Consensus size: 16
1007254 ATAGATATTT
1007264 ATAATAATTAATTATA
1 ATAATAATTAATTATA
*
1007280 ATAAT-ATTTATTATA
1 ATAATAATTAATTATA
* * *
1007295 TTTATAATTAA-AATAA
1 ATAATAATTAATTAT-A
*
1007311 ATAA-AATATAATTAAA
1 ATAATAAT-TAATTATA
*
1007327 ATAAT-TTATAATTATA
1 ATAATAAT-TAATTATA
1007343 AT
1 AT
1007345 TTAAATCTTT
Statistics
Matches: 49, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
15 17 0.35
16 31 0.63
17 1 0.02
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAATAATTAATTATA
Found at i:1007326 original size:11 final size:11
Alignment explanation
Indices: 1007297--1007329 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
1007287 TTATTATATT
1007297 TATAATTAAAA
1 TATAATTAAAA
1007308 TA-AA-TAAAA
1 TATAATTAAAA
1007317 TATAATTAAAA
1 TATAATTAAAA
1007328 TA
1 TA
1007330 ATTTATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 7 0.35
10 4 0.20
11 9 0.45
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
TATAATTAAAA
Found at i:1007668 original size:13 final size:14
Alignment explanation
Indices: 1007650--1007693 Score: 56
Period size: 13 Copynumber: 3.2 Consensus size: 14
1007640 TAAATGCATC
1007650 TATTTTATATT-TA
1 TATTTTATATTATA
*
1007663 TATTTTATTATTATT
1 TATTTTA-TATTATA
1007678 TATTTTAT-TTATA
1 TATTTTATATTATA
1007691 TAT
1 TAT
1007694 ATTTTTATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 14 0.52
14 5 0.19
15 8 0.30
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TATTTTATATTATA
Found at i:1007696 original size:15 final size:15
Alignment explanation
Indices: 1007650--1007698 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
1007640 TAAATGCATC
1007650 TATTTTA-TATT-TA
1 TATTTTATTATTATA
*
1007663 TATTTTATTATTATT
1 TATTTTATTATTATA
1007678 TATTTTATT-TATATA
1 TATTTTATTAT-TATA
1007693 TATTTT
1 TATTTT
1007699 TATCAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 7 0.23
14 5 0.16
15 19 0.61
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TATTTTATTATTATA
Found at i:1007708 original size:28 final size:28
Alignment explanation
Indices: 1007650--1007708 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
1007640 TAAATGCATC
* *
1007650 TATTTTATATTTATATTTTATTATTATT
1 TATTTTATATTTATATTTTATTATCAAT
1007678 TATTTTAT-TTATATATATTT-TTATCAAT
1 TATTTTATATT-TATAT-TTTATTATCAAT
1007706 TAT
1 TAT
1007709 ATAAATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 2 0.07
28 22 0.81
29 3 0.11
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (28 bp):
TATTTTATATTTATATTTTATTATCAAT
Found at i:1007718 original size:6 final size:6
Alignment explanation
Indices: 1007707--1007739 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
1007697 TTTATCAATT
1007707 ATATAA ATATAA ATAT-A ATATAAA ATATAA ATA
1 ATATAA ATATAA ATATAA ATAT-AA ATATAA ATA
1007740 GATATACAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.20
6 15 0.60
7 5 0.20
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAA
Found at i:1007758 original size:24 final size:25
Alignment explanation
Indices: 1007703--1007758 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
1007693 TATTTTTATC
* *
1007703 AATTATATAAATATAAATATAATAT
1 AATTATATAAATAGAAATACAATAT
* *
1007728 AA-AATATAAATAGATATACAAT-T
1 AATTATATAAATAGAAATACAATAT
1007751 AATTATAT
1 AATTATAT
1007759 TTAAATATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
23 3 0.12
24 20 0.80
25 2 0.08
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (25 bp):
AATTATATAAATAGAAATACAATAT
Found at i:1007799 original size:11 final size:12
Alignment explanation
Indices: 1007752--1007848 Score: 57
Period size: 11 Copynumber: 8.4 Consensus size: 12
1007742 TATACAATTA
1007752 ATTATATTTAA-
1 ATTATATTTAAT
*
1007763 A-TATA-TTGA-
1 ATTATATTTAAT
1007772 ATTATATTT-AT
1 ATTATATTTAAT
*
1007783 TTTATTATTTTAAT
1 ATTA-TA-TTTAAT
*
1007797 ATT-TATTAAAT
1 ATTATATTTAAT
1007808 ATATCATATTT-AT
1 AT-T-ATATTTAAT
1007821 ATTATATTT-AT
1 ATTATATTTAAT
* *
1007832 ATCATATTTAAA
1 ATTATATTTAAT
1007844 ATTAT
1 ATTAT
1007849 TAAATTTATT
Statistics
Matches: 68, Mismatches: 8, Indels: 19
0.72 0.08 0.20
Matches are distributed among these distances:
9 4 0.06
10 9 0.13
11 29 0.43
12 11 0.16
13 7 0.10
14 8 0.12
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.57
Consensus pattern (12 bp):
ATTATATTTAAT
Found at i:1008305 original size:17 final size:17
Alignment explanation
Indices: 1008278--1008321 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
1008268 AATTAATTAT
*
1008278 TAATTATTTTATTA-AA
1 TAATAATTTTATTAGAA
1008294 TATATAATTTTATTATGAA
1 TA-ATAATTTTATTA-GAA
1008313 TAATAATTT
1 TAATAATTT
1008322 AACTAACTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 2 0.08
17 11 0.46
18 7 0.29
19 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
TAATAATTTTATTAGAA
Found at i:1009268 original size:21 final size:22
Alignment explanation
Indices: 1009236--1009281 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
1009226 TAATTAATCG
* *
1009236 ATTTATTTTTAAATAATAATTA
1 ATTTATTTTTAAATAAAAATAA
1009258 ATTTA-TTTTAAATAAAAATAA
1 ATTTATTTTTAAATAAAAATAA
1009279 ATT
1 ATT
1009282 AATATATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATTTATTTTTAAATAAAAATAA
Found at i:1009436 original size:26 final size:26
Alignment explanation
Indices: 1009388--1009437 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
1009378 AATTAAAATA
* *
1009388 ATTTTATAATTAATTAAATTTTTATG
1 ATTTTATAATTAATAAAAGTTTTATG
*
1009414 ATTTTATAATTAGTAAAAGTTTTA
1 ATTTTATAATTAATAAAAGTTTTA
1009438 AATAAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (26 bp):
ATTTTATAATTAATAAAAGTTTTATG
Found at i:1009640 original size:14 final size:15
Alignment explanation
Indices: 1009623--1009655 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1009613 ATATAACATA
1009623 TTAAAT-ATAAAAAT
1 TTAAATAATAAAAAT
*
1009637 TTAATTAATAAAAAT
1 TTAAATAATAAAAAT
1009652 TTAA
1 TTAA
1009656 TTTTAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TTAAATAATAAAAAT
Found at i:1009674 original size:15 final size:17
Alignment explanation
Indices: 1009629--1009668 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
1009619 CATATTAAAT
1009629 ATAAAAATTTAA--TTA
1 ATAAAAATTTAATTTTA
1009644 ATAAAAATTTAATTTTA
1 ATAAAAATTTAATTTTA
1009661 A-AAAAATT
1 ATAAAAATT
1009669 ATTTTTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 12 0.52
16 7 0.30
17 4 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATAAAAATTTAATTTTA
Found at i:1017201 original size:25 final size:22
Alignment explanation
Indices: 1017170--1017238 Score: 59
Period size: 22 Copynumber: 3.0 Consensus size: 22
1017160 AATATTATAC
1017170 ATAATTATACAAATATAATATAAAA
1 ATAA-TATA-AAATATAATA-AAAA
*
1017195 ATAAT-TAAAATATGATAAAAA
1 ATAATATAAAATATAATAAAAA
* *
1017216 ATAAATATATGAATATATTAAAA
1 AT-AATATA-AAATATAATAAAA
1017239 TTTATATATT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
21 6 0.16
22 12 0.32
23 4 0.11
24 11 0.30
25 4 0.11
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (22 bp):
ATAATATAAAATATAATAAAAA
Found at i:1017247 original size:14 final size:14
Alignment explanation
Indices: 1017228--1017271 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
1017218 AAATATATGA
1017228 ATATATTAAAATTT
1 ATATATTAAAATTT
1017242 ATATATTACAAA-TT
1 ATATATTA-AAATTT
1017256 AT-TA--AAAATTT
1 ATATATTAAAATTT
1017267 ATATA
1 ATATA
1017272 AATATAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
10 3 0.11
11 5 0.19
12 2 0.07
13 2 0.07
14 12 0.44
15 3 0.11
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (14 bp):
ATATATTAAAATTT
Found at i:1017335 original size:28 final size:28
Alignment explanation
Indices: 1017267--1017342 Score: 77
Period size: 28 Copynumber: 2.7 Consensus size: 28
1017257 TTAAAAATTT
*
1017267 ATATAAAT-ATAAAATACTTTAAATAAG
1 ATATAAATAATAAAATACTATAAATAAG
*
1017294 ATATTATATAATAAAATA-TATAAATATA-
1 ATA-TAAATAATAAAATACTATAAATA-AG
*
1017322 ATATAAATACATAAATTACTA
1 ATATAAATA-ATAAAATACTA
1017343 AAAAATTAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
27 8 0.20
28 21 0.52
29 11 0.28
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (28 bp):
ATATAAATAATAAAATACTATAAATAAG
Found at i:1018456 original size:13 final size:13
Alignment explanation
Indices: 1018438--1018498 Score: 52
Period size: 13 Copynumber: 4.5 Consensus size: 13
1018428 TAATATTTAA
1018438 TAAATTTAAATTT
1 TAAATTTAAATTT
1018451 TAAATTTAATATTT
1 TAAATTTAA-ATTT
* *
1018465 TATTATTTAATTTT
1 TA-AATTTAAATTT
* *
1018479 TATCA-TTAAATTA
1 TA-AATTTAAATTT
1018492 TAAATTT
1 TAAATTT
1018499 TATTTGATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
12 1 0.03
13 19 0.49
14 13 0.33
15 6 0.15
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (13 bp):
TAAATTTAAATTT
Found at i:1018481 original size:14 final size:14
Alignment explanation
Indices: 1018440--1018481 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
1018430 ATATTTAATA
*
1018440 AATTTAAATTTTA-
1 AATTTAATTTTTAT
1018453 AATTTAATATTTTAT
1 AATTTAAT-TTTTAT
*
1018468 TATTTAATTTTTAT
1 AATTTAATTTTTAT
1018482 CATTAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 7 0.28
14 11 0.44
15 7 0.28
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
AATTTAATTTTTAT
Found at i:1019018 original size:3 final size:3
Alignment explanation
Indices: 1019010--1019046 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
1019000 TTAATAAAAA
1019010 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1019047 GAAGAGATTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:1022868 original size:4 final size:4
Alignment explanation
Indices: 1022859--1022885 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
1022849 GATCAAAGTA
1022859 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1022886 ATGTCCTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:1024777 original size:20 final size:20
Alignment explanation
Indices: 1024754--1024813 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 20
1024744 TACATTATTT
1024754 TTAATATAGTAACTTCATTA
1 TTAATATAGTAACTTCATTA
* * *
1024774 TTAAGATA--CA-TT-ATTT
1 TTAATATAGTAACTTCATTA
1024790 TTAATATAGTAACTTCATTA
1 TTAATATAGTAACTTCATTA
1024810 TTAA
1 TTAA
1024814 GATTCATTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
16 10 0.33
17 2 0.07
18 2 0.07
19 2 0.07
20 14 0.47
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.47
Consensus pattern (20 bp):
TTAATATAGTAACTTCATTA
Found at i:1024784 original size:36 final size:36
Alignment explanation
Indices: 1024725--1024833 Score: 172
Period size: 36 Copynumber: 3.1 Consensus size: 36
1024715 TAACATATTT
1024725 ATATAGT-AC-TCATTA-T-AGATACATTATTTTTA
1 ATATAGTAACTTCATTATTAAGATACATTATTTTTA
1024757 ATATAGTAACTTCATTATTAAGATACATTATTTTTA
1 ATATAGTAACTTCATTATTAAGATACATTATTTTTA
* *
1024793 ATATAGTAACTTCATTATTAAGATTCATTATTTTCA
1 ATATAGTAACTTCATTATTAAGATACATTATTTTTA
1024829 ATATA
1 ATATA
1024834 TTAGCTGAAG
Statistics
Matches: 71, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
32 7 0.10
33 2 0.03
34 6 0.08
35 1 0.01
36 55 0.77
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.47
Consensus pattern (36 bp):
ATATAGTAACTTCATTATTAAGATACATTATTTTTA
Found at i:1027858 original size:18 final size:19
Alignment explanation
Indices: 1027823--1027863 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1027813 AAACAAATAT
**
1027823 AAAATATTTAATTTTTCAA
1 AAAATATTTAATCATTCAA
1027842 AAAATATTTAA-CATTCAA
1 AAAATATTTAATCATTCAA
1027860 AAAA
1 AAAA
1027864 ATTATTTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATATTTAATCATTCAA
Found at i:1029577 original size:31 final size:31
Alignment explanation
Indices: 1029541--1029602 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
1029531 ATTTATATCG
* * * *
1029541 TATAATATGTTTATTTTAAGTTTGTTATACA
1 TATAATATATCTATCTTAAATTTGTTATACA
1029572 TATAATATATCTATCTTAAATTTGTTATACA
1 TATAATATATCTATCTTAAATTTGTTATACA
1029603 CGTAATTTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (31 bp):
TATAATATATCTATCTTAAATTTGTTATACA
Found at i:1030170 original size:5 final size:5
Alignment explanation
Indices: 1030160--1030237 Score: 52
Period size: 5 Copynumber: 15.6 Consensus size: 5
1030150 TTGATCATTT
** * * * *
1030160 TTATA TTATA TTATA -TATA AAATT TTTTA TTATA TTATA TTTTA TTTTAA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTAT-A
* *
1030210 TTATT TTATT TTA-A TTATA TTTATA TTA
1 TTATA TTATA TTATA TTATA -TTATA TTA
1030238 ATAAATTACG
Statistics
Matches: 58, Mismatches: 11, Indels: 8
0.75 0.14 0.10
Matches are distributed among these distances:
4 7 0.12
5 42 0.72
6 9 0.16
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (5 bp):
TTATA
Found at i:1030216 original size:14 final size:14
Alignment explanation
Indices: 1030197--1030239 Score: 68
Period size: 14 Copynumber: 3.0 Consensus size: 14
1030187 TATTATATTA
1030197 TATTTTATTTTAAT
1 TATTTTATTTTAAT
1030211 TATTTTATTTTAAT
1 TATTTTATTTTAAT
*
1030225 TATATTTATATTAAT
1 TAT-TTTATTTTAAT
1030240 AAATTACGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
14 17 0.63
15 10 0.37
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TATTTTATTTTAAT
Found at i:1030229 original size:30 final size:29
Alignment explanation
Indices: 1030160--1030236 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 29
1030150 TTGATCATTT
**
1030160 TTATATTATA-TTATATATAAAATTTTTTA
1 TTATATTATATTTATAT-TTTAATTTTTTA
1030189 TTATATTATATTT-TATTTTAATTATTTTA
1 TTATATTATATTTATATTTTAATT-TTTTA
*
1030218 TTTTAATTATATTTATATT
1 TTAT-ATTATATTTATATT
1030237 AATAAATTAC
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 5 0.12
29 21 0.51
30 11 0.27
31 4 0.10
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (29 bp):
TTATATTATATTTATATTTTAATTTTTTA
Found at i:1030238 original size:15 final size:15
Alignment explanation
Indices: 1030187--1030239 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 15
1030177 TAAAATTTTT
1030187 TATTATATTATATTTTA
1 TATTA-ATTATA-TTTA
*
1030204 TTTTAATTAT-TTTA
1 TATTAATTATATTTA
*
1030218 TTTTAATTATATTTA
1 TATTAATTATATTTA
1030233 TATTAAT
1 TATTAAT
1030240 AAATTACGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
14 14 0.42
15 10 0.30
16 5 0.15
17 4 0.12
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TATTAATTATATTTA
Found at i:1032611 original size:5 final size:5
Alignment explanation
Indices: 1032601--1032657 Score: 50
Period size: 5 Copynumber: 11.8 Consensus size: 5
1032591 TGGTAATAAA
* *
1032601 AATAT AATAT AAATAA AATAT AATAT -ATTT AAATAT AAT-T AATAT -AT-T
1 AATAT AATAT -AATAT AATAT AATAT AATAT -AATAT AATAT AATAT AATAT
1032649 AATAT AATA
1 AATAT AATA
1032658 AATTTGATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
3 1 0.02
4 11 0.26
5 23 0.55
6 7 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATAT
Found at i:1032614 original size:11 final size:11
Alignment explanation
Indices: 1032594--1032655 Score: 58
Period size: 11 Copynumber: 5.7 Consensus size: 11
1032584 GAAACACTGG
*
1032594 TAATAAAAATA
1 TAATATAAATA
1032605 TAATATAAATA
1 TAATATAAATA
*
1032616 AAATAT-AATA
1 TAATATAAATA
*
1032626 T-ATTTAAATA
1 TAATATAAATA
1032636 TAAT-TAATATA
1 TAATATAA-ATA
1032647 TTAATATAA
1 -TAATATAA
1032656 TAAATTTGAT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
9 3 0.07
10 12 0.29
11 20 0.48
12 4 0.10
13 3 0.07
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
TAATATAAATA
Found at i:1032645 original size:19 final size:19
Alignment explanation
Indices: 1032610--1032657 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
1032600 AAATATAATA
*
1032610 TAAATAAAATATAATATATT
1 TAAATATAATATAATATA-T
1032630 TAAATATAAT-TAATATAT
1 TAAATATAATATAATATAT
1032648 T-AATATAATA
1 TAAATATAATA
1032658 AATTTGATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 8 0.31
18 2 0.08
19 7 0.27
20 9 0.35
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TAAATATAATATAATATAT
Found at i:1032652 original size:17 final size:18
Alignment explanation
Indices: 1032601--1032657 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 18
1032591 TGGTAATAAA
*
1032601 AATATAATATA--AATAA
1 AATATAATATATTAATAT
1032617 AATATAATATATTTAAATAT
1 AATATAATATA-TT-AATAT
1032637 AAT-TAATATATTAATAT
1 AATATAATATATTAATAT
1032654 AATA
1 AATA
1032658 AATTTGATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
16 11 0.31
17 8 0.23
18 2 0.06
19 7 0.20
20 7 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AATATAATATATTAATAT
Found at i:1032822 original size:21 final size:19
Alignment explanation
Indices: 1032798--1032856 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 19
1032788 AATTTAATTG
1032798 ATAAAATTATTAAAATATTAA
1 ATAAAATTA-TAAAATA-TAA
*
1032819 ATAAAATCTATATAATATAA
1 ATAAAAT-TATAAAATATAA
1032839 ATATAAATT-TAAAGATAT
1 ATA-AAATTATAAA-ATAT
1032857 TGTTATCTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
19 3 0.09
20 11 0.33
21 17 0.52
22 2 0.06
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (19 bp):
ATAAAATTATAAAATATAA
Found at i:1033957 original size:22 final size:22
Alignment explanation
Indices: 1033931--1033972 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1033921 TCTTCTTTTG
*
1033931 ATAAATATTTTGAATAAATTTA
1 ATAAATATTTTGAAAAAATTTA
*
1033953 ATAAATATTTTTAAAAAATT
1 ATAAATATTTTGAAAAAATT
1033973 AAAATCATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
ATAAATATTTTGAAAAAATTTA
Found at i:1034385 original size:15 final size:16
Alignment explanation
Indices: 1034354--1034387 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
1034344 TATAAAATTA
1034354 AATTTTTTTATAATTTT
1 AATTTTTTTAT-ATTTT
1034371 AATTTTTTTAT-TTTT
1 AATTTTTTTATATTTT
1034386 AA
1 AA
1034388 ACCACATGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
17 11 0.65
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
AATTTTTTTATATTTT
Found at i:1035622 original size:25 final size:25
Alignment explanation
Indices: 1035576--1035625 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
1035566 TTTTATATAA
** *
1035576 ATATATTTAATTTTTTAATTTTTTT
1 ATATATTTAAAATATTAATTTTTTT
*
1035601 ATATATTTAAAATATTATTTTTTTT
1 ATATATTTAAAATATTAATTTTTTT
1035626 GTATTCATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (25 bp):
ATATATTTAAAATATTAATTTTTTT
Found at i:1036894 original size:18 final size:18
Alignment explanation
Indices: 1036868--1036913 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
1036858 ATTTGAGGAT
*
1036868 GATATATTTGAGGTAAAA
1 GATACATTTGAGGTAAAA
* * *
1036886 GATACATTTGCGGTAGAT
1 GATACATTTGAGGTAAAA
1036904 GATACATTTG
1 GATACATTTG
1036914 GGGTTGATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.35, C:0.07, G:0.24, T:0.35
Consensus pattern (18 bp):
GATACATTTGAGGTAAAA
Found at i:1038487 original size:22 final size:22
Alignment explanation
Indices: 1038461--1038511 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
1038451 CTTGTAAATT
*
1038461 AAAAATATA-TAAAAAATGAAAA
1 AAAAATACATTAAAAAA-GAAAA
1038483 AAAAATACATTAAAAAAGAAAA
1 AAAAATACATTAAAAAAGAAAA
*
1038505 AGAAATA
1 AAAAATA
1038512 AATTGACACC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.16
Consensus pattern (22 bp):
AAAAATACATTAAAAAAGAAAA
Found at i:1041160 original size:162 final size:164
Alignment explanation
Indices: 1040907--1041202 Score: 436
Period size: 163 Copynumber: 1.8 Consensus size: 164
1040897 CGAAAGTATT
* ** * * * *
1040907 AATTTAATTTAATTTTATTATTTTTGAAAATAATGTTTCATACCTTAATGGAGGCCTGATAGAAT
1 AATTTAATTTAATATTATTATTTTTGAAAATAACATTTCATACCCTAATGGAAGCCCGAAAGAAT
** *
1040972 ACAAAAAGGTTTTTGAAATTTTTTATA-CCCTTACGGATGCCCATAGGAATATAAA-GATTAGAA
66 ACAAAAAGGTTTTTGAAAACTTTTATACCCCCTACGGATGCCCATAGGAATATAAATGATTAGAA
1041035 AAAAAAAGATATTAGAATTTATCCCAATAATACC
131 AAAAAAAGATATTAGAATTTATCCCAATAATACC
* * *
1041069 AATTTAATTTAATATTATTTATTTTTGAAAATACCATTTCGTGCCCTAATGGAAGCCCGAAAGAA
1 AATTTAATTTAATATTA-TTATTTTTGAAAATAACATTTCATACCCTAATGGAAGCCCGAAAGAA
*
1041134 TAC-GAAAGGTTTTTGAAAACTTTTATACCCCCTACGGATGCCCATAGGAATATAAATGATTAGA
65 TACAAAAAGGTTTTTGAAAACTTTTATACCCCCTACGGATGCCCATAGGAATATAAATGATTAGA
1041198 AAAAA
130 AAAAA
1041203 TACATATTAT
Statistics
Matches: 117, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
162 37 0.32
163 68 0.58
164 12 0.10
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (164 bp):
AATTTAATTTAATATTATTATTTTTGAAAATAACATTTCATACCCTAATGGAAGCCCGAAAGAAT
ACAAAAAGGTTTTTGAAAACTTTTATACCCCCTACGGATGCCCATAGGAATATAAATGATTAGAA
AAAAAAAGATATTAGAATTTATCCCAATAATACC
Found at i:1045506 original size:41 final size:42
Alignment explanation
Indices: 1045420--1045659 Score: 98
Period size: 41 Copynumber: 5.8 Consensus size: 42
1045410 ACCGACGGGT
* * * * * * *
1045420 AGACAAAGGGTGAAGAAGTCTCTCGGGTCTAAGCTGATGGGC
1 AGACAAAGGGTAAAAAAGTCTCTAGGGTCAAAGCCGATAGAC
*
1045462 AGAC-AAGGGTAAAAAAGTCTTTAGGGTCAAAGCCGATAGAC
1 AGACAAAGGGTAAAAAAGTCTCTAGGGTCAAAGCCGATAGAC
* * * * * ** *
1045503 AGACTAATGGTGAAGAAGTCTCCCA-GGTCTGAGCCGATAGGC
1 AGACAAAGGGTAAAAAAGTCT-CTAGGGTCAAAGCCGATAGAC
* * * ** * * * *
1045545 AAACTAAAAGGTGAATGAGTCTCTCGGGTTAAAACCGATAGGC
1 AGAC-AAAGGGTAAAAAAGTCTCTAGGGTCAAAGCCGATAGAC
* * ** * *
1045588 A-A-ATAAGGCTGAAGGAGTCTCTTGGGTCAAAGTCGATATG-C
1 AGACA-AAGGGTAAAAAAGTCTCTAGGGTCAAAGCCGATA-GAC
*
1045629 AGAC-AAGGGTAAAGAAGTCT-TCAGGGTCAAA
1 AGACAAAGGGTAAAAAAGTCTCT-AGGGTCAAA
1045660 ACTAACAAGC
Statistics
Matches: 151, Mismatches: 38, Indels: 19
0.73 0.18 0.09
Matches are distributed among these distances:
40 2 0.01
41 83 0.55
42 38 0.25
43 28 0.19
ACGTcount: A:0.35, C:0.16, G:0.30, T:0.20
Consensus pattern (42 bp):
AGACAAAGGGTAAAAAAGTCTCTAGGGTCAAAGCCGATAGAC
Found at i:1045659 original size:167 final size:167
Alignment explanation
Indices: 1045425--1045737 Score: 416
Period size: 167 Copynumber: 1.9 Consensus size: 167
1045415 CGGGTAGACA
* * * *
1045425 AAGGGTGAAGAAGTCTCTCGGGTCTAAGCTGATGGGCAGACAAGGGTAAAAAAGTCTTTAGGGTC
1 AAGGCTGAAGAAGTCTCTCGGGTCAAAGCTGATAGGCAGACAAGGGTAAAAAAGTCTTCAGGGTC
* * * * *
1045490 AAAGCCGA-TAGACAGACTAATGGTGAAGAAGTCTCCCAGGTCTGAGCCGATAGGCAAACTAAAA
66 AAAACCAACAAG-CAGACTAAAGGTGAAGAAGTCTCCCAGGTCTGAGCAGATAGGCAAACTAAAA
1045554 GGTGAATG-AGTCTCTCGGGTTAAAACCGATAGGCAAAT
130 GGTGAA-GAAGTCTCTCGGGTTAAAACCGATAGGCAAAT
* * * *
1045592 AAGGCTGAAGGAGTCTCTTGGGTCAAAG-TCGATATGCAGACAAGGGTAAAGAAGTCTTCAGGGT
1 AAGGCTGAAGAAGTCTCTCGGGTCAAAGCT-GATAGGCAGACAAGGGTAAAAAAGTCTTCAGGGT
* * * * *
1045656 CAAAACTAACAAGCAGACTAAAGGTGAAGAAGTCTTCCAGGTCTGAGCAGATAGGTAGATTAAAA
65 CAAAACCAACAAGCAGACTAAAGGTGAAGAAGTCTCCCAGGTCTGAGCAGATAGGCAAACTAAAA
1045721 GGTGAAGAAGTCTCTCG
130 GGTGAAGAAGTCTCTCG
1045738 AGTCTAAGCC
Statistics
Matches: 125, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
166 2 0.02
167 121 0.97
168 2 0.02
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20
Consensus pattern (167 bp):
AAGGCTGAAGAAGTCTCTCGGGTCAAAGCTGATAGGCAGACAAGGGTAAAAAAGTCTTCAGGGTC
AAAACCAACAAGCAGACTAAAGGTGAAGAAGTCTCCCAGGTCTGAGCAGATAGGCAAACTAAAAG
GTGAAGAAGTCTCTCGGGTTAAAACCGATAGGCAAAT
Found at i:1046117 original size:43 final size:44
Alignment explanation
Indices: 1046061--1046490 Score: 130
Period size: 45 Copynumber: 9.7 Consensus size: 44
1046051 AATATATTTG
* *
1046061 ACCAGGGTTGTAACCATACATCAAATCAGAATGAAAAG-ATCCA
1 ACCAGGGTAGTAACCATACATCAAATCAAAATGAAAAGAATCCA
* * * * **
1046104 ACCAGAGTAGTAACTATACGTCAAATCAAAATGGAAAGAATCTG
1 ACCAGGGTAGTAACCATACATCAAATCAAAATGAAAAGAATCCA
* * * * * * * ***
1046148 ACCAGGGTGGTAACCATACGTCAGACCTGAAATGAGAAGAGTTTG
1 ACCAGGGTAGTAACCATACATCAAATC-AAAATGAAAAGAATCCA
* * * * * **
1046193 ACTATGGTTGTAACCATACGTCAAATGAAAAT-AGAAAGAATCTG
1 ACCAGGGTAGTAACCATACATCAAATCAAAATGA-AAAGAATCCA
* * * * * * * ***
1046237 ACCAAGGTGGCAACCATACGTCAGACCTGAAATGAGAAA-AATTTG
1 ACCAGGGTAGTAACCATACATCAAATC-AAAATGA-AAAGAATCCA
* * * * **
1046282 ACCAGGGTGGTAACTATACATCAAATCAAAATGGAAATAATCTG
1 ACCAGGGTAGTAACCATACATCAAATCAAAATGAAAAGAATCCA
* * * * * * * * * * ***
1046326 ACTAGGGTGGCAACCATACGTTAGACCTGAAATGACAAGAGTTTG
1 ACCAGGGTAGTAACCATACATCAAATC-AAAATGAAAAGAATCCA
* * * **
1046371 ACCAGGATAGTAACCATACGTCAAATCAAAATGGAAAGAA-CTTG
1 ACCAGGGTAGTAACCATACATCAAATCAAAATGAAAAGAATC-CA
* ** * * * ***
1046415 ACCAGGGTGGTAACCATATGTCAGACCTAAAATGAAAAGAGTTTG
1 ACCAGGGTAGTAACCATACATCAAATC-AAAATGAAAAGAATCCA
* * *
1046460 ACGAGGGTGGTAACCATACATCAAATTAAAA
1 ACCAGGGTAGTAACCATACATCAAATCAAAA
1046491 CCAAGGTGGC
Statistics
Matches: 292, Mismatches: 85, Indels: 19
0.74 0.21 0.05
Matches are distributed among these distances:
43 36 0.12
44 123 0.42
45 128 0.44
46 5 0.02
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.21
Consensus pattern (44 bp):
ACCAGGGTAGTAACCATACATCAAATCAAAATGAAAAGAATCCA
Found at i:1046206 original size:45 final size:45
Alignment explanation
Indices: 1046139--1046478 Score: 298
Period size: 45 Copynumber: 7.6 Consensus size: 45
1046129 TCAAAATGGA
*
1046139 AAGAATCTGACCAGGGTGGTAACCATACGTCAGACCTGAAATGAG
1 AAGAATTTGACCAGGGTGGTAACCATACGTCAGACCTGAAATGAG
* * * * *
1046184 AAGAGTTTGACTATGGTTGTAACCATACGTCA-A-ATGAAAAT-AG
1 AAGAATTTGACCAGGGTGGTAACCATACGTCAGACCTG-AAATGAG
* * *
1046227 AAAGAATCTGACCAAGGTGGCAACCATACGTCAGACCTGAAATGAG
1 -AAGAATTTGACCAGGGTGGTAACCATACGTCAGACCTGAAATGAG
* * * * * *
1046273 AAAAATTTGACCAGGGTGGTAACTATACATCAAATC-AAAATG-G
1 AAGAATTTGACCAGGGTGGTAACCATACGTCAGACCTGAAATGAG
* * * * * *
1046316 AAATAATCTGACTAGGGTGGCAACCATACGTTAGACCTGAAATGAC
1 -AAGAATTTGACCAGGGTGGTAACCATACGTCAGACCTGAAATGAG
* * * * * *
1046362 AAGAGTTTGACCAGGATAGTAACCATACGTCAAATC-AAAATG-G
1 AAGAATTTGACCAGGGTGGTAACCATACGTCAGACCTGAAATGAG
* * * *
1046405 AAAGAACTTGACCAGGGTGGTAACCATATGTCAGACCTAAAATGAA
1 -AAGAATTTGACCAGGGTGGTAACCATACGTCAGACCTGAAATGAG
* *
1046451 AAGAGTTTGACGAGGGTGGTAACCATAC
1 AAGAATTTGACCAGGGTGGTAACCATAC
1046479 ATCAAATTAA
Statistics
Matches: 227, Mismatches: 57, Indels: 22
0.74 0.19 0.07
Matches are distributed among these distances:
43 5 0.02
44 97 0.43
45 121 0.53
46 4 0.02
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.21
Consensus pattern (45 bp):
AAGAATTTGACCAGGGTGGTAACCATACGTCAGACCTGAAATGAG
Found at i:1046224 original size:89 final size:89
Alignment explanation
Indices: 1046104--1046490 Score: 515
Period size: 89 Copynumber: 4.3 Consensus size: 89
1046094 AAAAGATCCA
* * * *
1046104 ACCAGAGTAGTAACTATACGTCAAATCAAAATGGAAAGAATCTGACCAGGGTGGTAACCATACGT
1 ACCAGGGTGGTAACCATACGTCAAATCAAAATGGAAAGAATCTGACCAGGGTGGCAACCATACGT
1046169 CAGACCTGAAATGAGAAGAGTTTG
66 CAGACCTGAAATGAGAAGAGTTTG
* * * * * *
1046193 ACTATGGTTGTAACCATACGTCAAATGAAAATAGAAAGAATCTGACCAAGGTGGCAACCATACGT
1 ACCAGGGTGGTAACCATACGTCAAATCAAAATGGAAAGAATCTGACCAGGGTGGCAACCATACGT
* *
1046258 CAGACCTGAAATGAGAAAAATTTG
66 CAGACCTGAAATGAGAAGAGTTTG
* * * *
1046282 ACCAGGGTGGTAACTATACATCAAATCAAAATGGAAATAATCTGACTAGGGTGGCAACCATACGT
1 ACCAGGGTGGTAACCATACGTCAAATCAAAATGGAAAGAATCTGACCAGGGTGGCAACCATACGT
* *
1046347 TAGACCTGAAATGACAAGAGTTTG
66 CAGACCTGAAATGAGAAGAGTTTG
* * * *
1046371 ACCAGGATAGTAACCATACGTCAAATCAAAATGGAAAGAA-CTTGACCAGGGTGGTAACCATATG
1 ACCAGGGTGGTAACCATACGTCAAATCAAAATGGAAAGAATC-TGACCAGGGTGGCAACCATACG
* *
1046435 TCAGACCTAAAATGAAAAGAGTTTG
65 TCAGACCTGAAATGAGAAGAGTTTG
* * *
1046460 ACGAGGGTGGTAACCATACATCAAATTAAAA
1 ACCAGGGTGGTAACCATACGTCAAATCAAAA
1046491 CCAAGGTGGC
Statistics
Matches: 256, Mismatches: 41, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
88 1 0.00
89 255 1.00
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.21
Consensus pattern (89 bp):
ACCAGGGTGGTAACCATACGTCAAATCAAAATGGAAAGAATCTGACCAGGGTGGCAACCATACGT
CAGACCTGAAATGAGAAGAGTTTG
Found at i:1046432 original size:178 final size:178
Alignment explanation
Indices: 1046104--1046793 Score: 835
Period size: 178 Copynumber: 4.0 Consensus size: 178
1046094 AAAAGATCCA
* * * * *
1046104 ACCAGAGTAGTAACTATACGTCAAATCAAAATGGAAAGAATCTGACCAGGGTGGTAACCATACGT
1 ACCAGGGTGGTAACCATACATCAAATCAAAATGGAAAGAATCTGACCAGGGTGGCAACCATACGT
* * * *
1046169 CAGACCTGAAATGAGAAGAGTTTGACTATGGTTGTAACCATACGTCAAATGAAAATAGAAAGAAT
66 CAGACCTGAAATGAGAAGAGTTTGACCATGGTGGTAACCATACGTCAAATCAAAATGGAAAGAAT
*
1046234 CTGACCAAGGTGGCAACCATACGTCAGACCTGAAATGAGAAAAATTTG
131 CTGACCAGGGTGGCAACCATACGTCAGACCTGAAATGAGAAAAATTTG
* * *
1046282 ACCAGGGTGGTAACTATACATCAAATCAAAATGGAAATAATCTGACTAGGGTGGCAACCATACGT
1 ACCAGGGTGGTAACCATACATCAAATCAAAATGGAAAGAATCTGACCAGGGTGGCAACCATACGT
* * *
1046347 TAGACCTGAAATGACAAGAGTTTGACCA-GGATAGTAACCATACGTCAAATCAAAATGGAAAGAA
66 CAGACCTGAAATGAGAAGAGTTTGACCATGG-TGGTAACCATACGTCAAATCAAAATGGAAAGAA
* * * *
1046411 -CTTGACCAGGGTGGTAACCATATGTCAGACCTAAAATGA-AAAGAGTTTG
130 TC-TGACCAGGGTGGCAACCATACGTCAGACCTGAAATGAGAAA-AATTTG
* * *
1046460 ACGAGGGTGGTAACCATACATCAAAT-----T----A-AA----ACCAAGGTGGCAACCATATGT
1 ACCAGGGTGGTAACCATACATCAAATCAAAATGGAAAGAATCTGACCAGGGTGGCAACCATACGT
* * * * *
1046511 CAGACTTGAAATAAGAAGAGTTTGACTAGGGTGGTAACCATATGTCAAATCAAAATGGAAAGAAT
66 CAGACCTGAAATGAGAAGAGTTTGACCATGGTGGTAACCATACGTCAAATCAAAATGGAAAGAAT
* * * **
1046576 CTGACCAGGGTGGCAA-CATACGTTATACCTGAAATAAGAAGCATTTG
131 CTGACCAGGGTGGCAACCATACGTCAGACCTGAAATGAGAAAAATTTG
* * *
1046623 ACCAGGGTGGTAACCATACGTAAAATCAAAATGGAAAGAATCTAACCAGGGTGGCAACCATACGT
1 ACCAGGGTGGTAACCATACATCAAATCAAAATGGAAAGAATCTGACCAGGGTGGCAACCATACGT
* *
1046688 CAGACTTGAAATGAGAAGAGTTTGACCATGGTGGTAATCATACGTCAAATCAAAATGGAAAGAAT
66 CAGACCTGAAATGAGAAGAGTTTGACCATGGTGGTAACCATACGTCAAATCAAAATGGAAAGAAT
* * * *
1046753 CTGACTAGGGTGGTAACCATATGTCAAACCTG-AA-GAGAAAA
131 CTGACCAGGGTGGCAACCATACGTCAGACCTGAAATGAGAAAA
1046794 GACACTTGGT
Statistics
Matches: 435, Mismatches: 56, Indels: 44
0.81 0.10 0.08
Matches are distributed among these distances:
163 43 0.10
164 88 0.20
165 3 0.01
168 3 0.01
169 1 0.00
172 1 0.00
173 3 0.01
176 4 0.01
177 101 0.23
178 188 0.43
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.21
Consensus pattern (178 bp):
ACCAGGGTGGTAACCATACATCAAATCAAAATGGAAAGAATCTGACCAGGGTGGCAACCATACGT
CAGACCTGAAATGAGAAGAGTTTGACCATGGTGGTAACCATACGTCAAATCAAAATGGAAAGAAT
CTGACCAGGGTGGCAACCATACGTCAGACCTGAAATGAGAAAAATTTG
Found at i:1046559 original size:75 final size:75
Alignment explanation
Indices: 1046415--1046565 Score: 214
Period size: 75 Copynumber: 2.0 Consensus size: 75
1046405 AAAGAACTTG
* *
1046415 ACCAGGGTGGTAACCATATGTCAGACCTAAAATGAAAAGAGTTTGACGAGGGTGGTAACCATACA
1 ACCAAGGTGGCAACCATATGTCAGACCTAAAATGAAAAGAGTTTGACGAGGGTGGTAACCATACA
*
1046480 TCAAATTAAA
66 TCAAATCAAA
* * * *
1046490 ACCAAGGTGGCAACCATATGTCAGACTTGAAAT-AAGAAGAGTTTGACTAGGGTGGTAACCATAT
1 ACCAAGGTGGCAACCATATGTCAGACCTAAAATGAA-AAGAGTTTGACGAGGGTGGTAACCATAC
*
1046554 GTCAAATCAAA
65 ATCAAATCAAA
1046565 A
1 A
1046566 TGGAAAGAAT
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
74 2 0.03
75 65 0.97
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.22
Consensus pattern (75 bp):
ACCAAGGTGGCAACCATATGTCAGACCTAAAATGAAAAGAGTTTGACGAGGGTGGTAACCATACA
TCAAATCAAA
Found at i:1046730 original size:89 final size:89
Alignment explanation
Indices: 1046489--1046778 Score: 413
Period size: 89 Copynumber: 3.3 Consensus size: 89
1046479 ATCAAATTAA
* * * *
1046489 AACCAAGGTGGCAACCATATGTCAGACTTGAAATAAGAAGAGTTTGACTAGGGTGGTAACCATAT
1 AACCAGGGTGGCAACCATACGTCAGACTTGAAATAAGAAGAGTTTGACCAGGGTGGTAACCATAC
1046554 GTCAAATCAAAATGGAAAGAATCT
66 GTCAAATCAAAATGGAAAGAATCT
* * * *
1046578 GACCAGGGTGGCAA-CATACGTTATACCTGAAATAAGAAGCA-TTTGACCAGGGTGGTAACCATA
1 AACCAGGGTGGCAACCATACGTCAGACTTGAAATAAGAAG-AGTTTGACCAGGGTGGTAACCATA
*
1046641 CGTAAAATCAAAATGGAAAGAATCT
65 CGTCAAATCAAAATGGAAAGAATCT
* * *
1046666 AACCAGGGTGGCAACCATACGTCAGACTTGAAATGAGAAGAGTTTGACCATGGTGGTAATCATAC
1 AACCAGGGTGGCAACCATACGTCAGACTTGAAATAAGAAGAGTTTGACCAGGGTGGTAACCATAC
1046731 GTCAAATCAAAATGGAAAGAATCT
66 GTCAAATCAAAATGGAAAGAATCT
* * * *
1046755 GACTAGGGTGGTAACCATATGTCA
1 AACCAGGGTGGCAACCATACGTCA
1046779 AACCTGAAGA
Statistics
Matches: 177, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
88 79 0.45
89 98 0.55
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (89 bp):
AACCAGGGTGGCAACCATACGTCAGACTTGAAATAAGAAGAGTTTGACCAGGGTGGTAACCATAC
GTCAAATCAAAATGGAAAGAATCT
Found at i:1046779 original size:44 final size:44
Alignment explanation
Indices: 1046533--1046780 Score: 241
Period size: 44 Copynumber: 5.6 Consensus size: 44
1046523 AAGAAGAGTT
* *
1046533 TGACTAGGGTGGTAACCATATGTCAAATCAAAATGGAAAGAATC
1 TGACCAGGGTGGTAACCATACGTCAAATCAAAATGGAAAGAATC
* * * * * * * *
1046577 TGACCAGGGTGGCAA-CATACGTTATACCTGAAAT-AAGAAGCATT
1 TGACCAGGGTGGTAACCATACGTCAAATC-AAAATGGA-AAGAATC
*
1046621 TGACCAGGGTGGTAACCATACGTAAAATCAAAATGGAAAGAATC
1 TGACCAGGGTGGTAACCATACGTCAAATCAAAATGGAAAGAATC
* * * ** * *
1046665 TAACCAGGGTGGCAACCATACGTCAGACTTGAAAT-GAGAAGAGTT
1 TGACCAGGGTGGTAACCATACGTCA-AATCAAAATGGA-AAGAATC
* *
1046710 TGACCATGGTGGTAATCATACGTCAAATCAAAATGGAAAGAATC
1 TGACCAGGGTGGTAACCATACGTCAAATCAAAATGGAAAGAATC
* *
1046754 TGACTAGGGTGGTAACCATATGTCAAA
1 TGACCAGGGTGGTAACCATACGTCAAA
1046781 CCTGAAGAGA
Statistics
Matches: 158, Mismatches: 39, Indels: 14
0.75 0.18 0.07
Matches are distributed among these distances:
43 10 0.06
44 103 0.65
45 45 0.28
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (44 bp):
TGACCAGGGTGGTAACCATACGTCAAATCAAAATGGAAAGAATC
Found at i:1046795 original size:341 final size:342
Alignment explanation
Indices: 1046148--1046783 Score: 972
Period size: 341 Copynumber: 1.9 Consensus size: 342
1046138 AAAGAATCTG
* * * * *
1046148 ACCAGGGTGGTAACCATACGTCAGACCTGAAATGAGAAGAGTTTGACTATGGTTGTAACCATACG
1 ACCAAGGTGGCAACCATACGTCAGACCTGAAATAAGAAGAGTTTGACTAGGGTGGTAACCATACG
* *
1046213 TCAAATGAAAATAGAAAGAATCTGACCAAGGTGGCAACCATACGTCAGACCTGAAATGAGAAAAA
66 TCAAATCAAAATAGAAAGAATCTGACCAAGGTGGCAACCATACGTCAGACCTGAAATAAGAAAAA
* * * * *
1046278 TTTGACCAGGGTGGTAACTATACATCAAATCAAAATGGAAATAATCTGACTAGGGTGGCAACCAT
131 TTTGACCAGGGTGGTAACCATACATAAAATCAAAATGGAAAGAATCTAACCAGGGTGGCAACCAT
*
1046343 ACGTTAGACCTGAAATGACAAGAGTTTGACCAGGATAGTAACCATACGTCAAATCAAAATGGAAA
196 ACGTCAGACCTGAAATGACAAGAGTTTGACCAGGATAGTAACCATACGTCAAATCAAAATGGAAA
*
1046408 GAACTTGACCAGGGTGGTAACCATATGTCAGACCTAAAATGAAAAGAGTTTGACGAGGGTGGTAA
261 GAACTTGACCAGGGTGGTAACCATATGTCAAACCTAAAATGAAAAGAGTTTGACGAGGGTGGTAA
1046473 CCATACATCAAATTAAA
326 CCATACATCAAATTAAA
* * *
1046490 ACCAAGGTGGCAACCATATGTCAGACTTGAAATAAGAAGAGTTTGACTAGGGTGGTAACCATATG
1 ACCAAGGTGGCAACCATACGTCAGACCTGAAATAAGAAGAGTTTGACTAGGGTGGTAACCATACG
* * * * **
1046555 TCAAATCAAAATGGAAAGAATCTGACCAGGGTGGCAA-CATACGTTATACCTGAAATAAGAAGCA
66 TCAAATCAAAATAGAAAGAATCTGACCAAGGTGGCAACCATACGTCAGACCTGAAATAAGAAAAA
*
1046619 TTTGACCAGGGTGGTAACCATACGTAAAATCAAAATGGAAAGAATCTAACCAGGGTGGCAACCAT
131 TTTGACCAGGGTGGTAACCATACATAAAATCAAAATGGAAAGAATCTAACCAGGGTGGCAACCAT
* * * *
1046684 ACGTCAGACTTGAAATGAGAAGAGTTTGACCATGG-TGGTAATCATACGTCAAATCAAAATGGAA
196 ACGTCAGACCTGAAATGACAAGAGTTTGACCA-GGATAGTAACCATACGTCAAATCAAAATGGAA
*
1046748 AGAA-TCTGACTAGGGTGGTAACCATATGTCAAACCT
260 AGAACT-TGACCAGGGTGGTAACCATATGTCAAACCT
1046784 GAAGAGAAAA
Statistics
Matches: 263, Mismatches: 29, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
340 1 0.00
341 169 0.64
342 93 0.35
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.21
Consensus pattern (342 bp):
ACCAAGGTGGCAACCATACGTCAGACCTGAAATAAGAAGAGTTTGACTAGGGTGGTAACCATACG
TCAAATCAAAATAGAAAGAATCTGACCAAGGTGGCAACCATACGTCAGACCTGAAATAAGAAAAA
TTTGACCAGGGTGGTAACCATACATAAAATCAAAATGGAAAGAATCTAACCAGGGTGGCAACCAT
ACGTCAGACCTGAAATGACAAGAGTTTGACCAGGATAGTAACCATACGTCAAATCAAAATGGAAA
GAACTTGACCAGGGTGGTAACCATATGTCAAACCTAAAATGAAAAGAGTTTGACGAGGGTGGTAA
CCATACATCAAATTAAA
Found at i:1048277 original size:163 final size:163
Alignment explanation
Indices: 1047959--1048286 Score: 371
Period size: 163 Copynumber: 2.0 Consensus size: 163
1047949 TTTCTCTGTA
* * *
1047959 AATTTTTTCGAGGGGATTTTTTTTTGTTTTTAATTTTTAAAATTCATCAAAATCATTATTTATTT
1 AATTTTTTCGAGGGAATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAAATCATTATTTATTT
* * * *
1048024 CATATTAAATCAGTTCTCAAAAATTCATTCATTTTCATAAATTTTTGAATTTTTTCTTGAAATTA
66 CATATTAAATCAGTTCTAAAAAATTAATTCATTTTCATAAAGTTTTGAATTTTTTCTTGAAATCA
** * *
1048089 TTATTTTTTAAAATATGGTGTTTTCTACTTCGT
131 TTATTTTTTAAAATACCGAGTTTTCTACTCCGT
* *
1048122 AATTTTTTCGAGGGAATTTTTCTTGGTTTTTAA-TTTTAAAATTCATTAAACATTATTATTTGAT
1 AATTTTTTCGAGGGAATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAA-ATCATTATTT-AT
* * * * *
1048186 TT-ATATTAATTTAGTTTTAAAAAATTAATTTATTTTCAT-GAGTTTTGAA-TTTTTCTTTGAAA
64 TTCATATTAAATCAGTTCTAAAAAATTAATTCATTTTCATAAAGTTTTGAATTTTTTC-TTG-AA
* * *
1048248 ATCCCTT-TTTTTTAGGAA-ACCGAGTTTTCTTCTCCGT
127 AT-CATTATTTTTTA-AAATACCGAGTTTTCTACTCCGT
1048285 AA
1 AA
1048287 ATCTTTTAGG
Statistics
Matches: 138, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
161 6 0.04
162 27 0.20
163 97 0.70
164 8 0.06
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.52
Consensus pattern (163 bp):
AATTTTTTCGAGGGAATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAAATCATTATTTATTT
CATATTAAATCAGTTCTAAAAAATTAATTCATTTTCATAAAGTTTTGAATTTTTTCTTGAAATCA
TTATTTTTTAAAATACCGAGTTTTCTACTCCGT
Found at i:1051330 original size:20 final size:20
Alignment explanation
Indices: 1051286--1051330 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1051276 GTTAACAGCC
1051286 CATG-TTCATGCATTTTGAG
1 CATGTTTCATGCATTTTGAG
1051305 CTATGTTTCATGCATTTAT-AG
1 C-ATGTTTCATGCATTT-TGAG
1051326 CATGT
1 CATGT
1051331 CCAGCACCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
19 1 0.04
20 7 0.30
21 14 0.61
22 1 0.04
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (20 bp):
CATGTTTCATGCATTTTGAG
Found at i:1057436 original size:16 final size:15
Alignment explanation
Indices: 1057424--1057460 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
1057414 AACAAAAGCA
1057424 AAAACAAAAAAAATG
1 AAAACAAAAAAAATG
1057439 AAAACAAAAAAAA--
1 AAAACAAAAAAAATG
1057452 AAAACAAAA
1 AAAACAAAA
1057461 TTAAAAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 9 0.41
15 13 0.59
ACGTcount: A:0.86, C:0.08, G:0.03, T:0.03
Consensus pattern (15 bp):
AAAACAAAAAAAATG
Found at i:1057468 original size:13 final size:13
Alignment explanation
Indices: 1057403--1057460 Score: 64
Period size: 13 Copynumber: 4.3 Consensus size: 13
1057393 ATGAAGAAGT
1057403 AAAAAAAAAAGAAC
1 AAAAAAAAAA-AAC
**
1057417 -AAAAGCAAAAAC
1 AAAAAAAAAAAAC
1057429 AAAAAAAATGAAAAC
1 AAAAAAAA--AAAAC
1057444 AAAAAAAAAAAAC
1 AAAAAAAAAAAAC
1057457 AAAA
1 AAAA
1057461 TTAAAAAAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
12 3 0.08
13 21 0.57
15 13 0.35
ACGTcount: A:0.84, C:0.09, G:0.05, T:0.02
Consensus pattern (13 bp):
AAAAAAAAAAAAC
Found at i:1058048 original size:29 final size:30
Alignment explanation
Indices: 1058016--1058073 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
1058006 TTGTTGGAAA
*
1058016 CAAACC-ATCATCTTTCTTGTCAAATAAAT
1 CAAACCAATCATCTTTATTGTCAAATAAAT
1058045 CAAACCATATCATCTTTATTGTCAAATAA
1 CAAACCA-ATCATCTTTATTGTCAAATAA
1058074 GCATTTTGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 6 0.23
31 20 0.77
ACGTcount: A:0.40, C:0.22, G:0.03, T:0.34
Consensus pattern (30 bp):
CAAACCAATCATCTTTATTGTCAAATAAAT
Found at i:1058832 original size:27 final size:26
Alignment explanation
Indices: 1058794--1059104 Score: 194
Period size: 27 Copynumber: 11.0 Consensus size: 26
1058784 ATCTCTTCTC
*
1058794 TAAGTCCACAACTCCGTGGCACTCTTT
1 TAAGTCCACAACTCTGTGGCAC-CTTT
* *
1058821 TAAGTTCACAACTCTGTGGCACCCTCT
1 TAAGTCCACAACTCTGTGGCA-CCTTT
* *
1058848 TAAGTCCACAACTTTGTGGCACCCTCT
1 TAAGTCCACAACTCTGTGGCA-CCTTT
1058875 TAAGTCCACAACTCTGTGGCACCTTTT
1 TAAGTCCACAACTCTGTGGCACC-TTT
*
1058902 TAAGTCCACAACTCCGTGGCACCTTTTTCCTT
1 TAAGTCCACAACTCTGTGGCACC----T--TT
** *
1058934 TAAACCCACAACTCTATGGCATCCTTT
1 TAAGTCCACAACTCTGTGGCA-CCTTT
* *
1058961 TAAGTTCACAACTCTGTGGCACCCTTC
1 TAAGTCCACAACTCTGTGGCA-CCTTT
* * * *
1058988 AAAGTCCACGACT-TAATGGCATTTCTTCT
1 TAAGTCCACAACTCT-GTGGCA--CCTT-T
*
1059017 CTAAGTCCACGACATC-GTGGCACCTTTTCTTTT
1 -TAAGTCCACAAC-TCTGTGGCA-C----C-TTT
*
1059050 TAAGTCCACAACTTTGTGGCACTCTTT
1 TAAGTCCACAACTCTGTGGCAC-CTTT
* * *
1059077 TAAGTCTACAGCTCCGTGGCACCCTTT
1 TAAGTCCACAACTCTGTGGCA-CCTTT
1059104 T
1 T
1059105 TCTTTTTTAA
Statistics
Matches: 228, Mismatches: 35, Indels: 42
0.75 0.11 0.14
Matches are distributed among these distances:
26 3 0.01
27 154 0.68
28 7 0.03
29 1 0.00
30 18 0.08
31 3 0.01
32 36 0.16
33 4 0.02
34 2 0.01
ACGTcount: A:0.22, C:0.31, G:0.14, T:0.32
Consensus pattern (26 bp):
TAAGTCCACAACTCTGTGGCACCTTT
Found at i:1058964 original size:59 final size:58
Alignment explanation
Indices: 1058794--1059210 Score: 294
Period size: 59 Copynumber: 7.2 Consensus size: 58
1058784 ATCTCTTCTC
* * *
1058794 TAAGTCCACAACTCCGTGGCA-C----TCTTTTAAGTTCACAACTCTGTGGCACCCTCT
1 TAAGTCCACAACTCCGTGGCACCTTTTTCCTTTAAGTCCACAACTCTGTGGCA-CCTTT
** *
1058848 TAAGTCCACAACTTTGTGGCACC---CT-C-TTAAGTCCACAACTCTGTGGCACCTTTT
1 TAAGTCCACAACTCCGTGGCACCTTTTTCCTTTAAGTCCACAACTCTGTGGCACC-TTT
** *
1058902 TAAGTCCACAACTCCGTGGCACCTTTTTCCTTTAAACCCACAACTCTATGGCATCCTTT
1 TAAGTCCACAACTCCGTGGCACCTTTTTCCTTTAAGTCCACAACTCTGTGGCA-CCTTT
* * * * * * *
1058961 TAAGTTCACAACTCTGTGGCACC--CTT-C--AAAGTCCACGACT-TAATGGCATTTCTTCT
1 TAAGTCCACAACTCCGTGGCACCTTTTTCCTTTAAGTCCACAACTCT-GTGGCA--CCTT-T
* * *
1059017 CTAAGTCCACGACAT-CGTGGCACC-TTTTCTTTTTAAGTCCACAACTTTGTGGCACTCTTT
1 -TAAGTCCACAAC-TCCGTGGCACCTTTTTC-CTTTAAGTCCACAACTCTGTGGCAC-CTTT
* * * * *
1059077 TAAGTCTACAGCTCCGTGGCACCCTTTTTCTTTTTTAAGTCCATAACTCCGTGGCACCTTTT
1 TAAGTCCACAACTCCGTGGCA-CCTTTTTC--CTTTAAGTCCACAACTCTGTGGCACC-TTT
* * * * * *
1059139 TAAGTCCACAACTTCGTGGTACCTTTTTCCTTCAAGTCCATAACTTTGTGGCATCATTT
1 TAAGTCCACAACTCCGTGGCACCTTTTTCCTTTAAGTCCACAACTCTGTGGCA-CCTTT
1059198 TAAGTCCACAACT
1 TAAGTCCACAACT
1059211 TCAGGGTACC
Statistics
Matches: 293, Mismatches: 43, Indels: 49
0.76 0.11 0.13
Matches are distributed among these distances:
53 3 0.01
54 78 0.27
55 5 0.02
56 3 0.01
57 21 0.07
58 5 0.02
59 95 0.32
60 6 0.02
61 17 0.06
62 59 0.20
63 1 0.00
ACGTcount: A:0.22, C:0.30, G:0.14, T:0.34
Consensus pattern (58 bp):
TAAGTCCACAACTCCGTGGCACCTTTTTCCTTTAAGTCCACAACTCTGTGGCACCTTT
Found at i:1059070 original size:116 final size:115
Alignment explanation
Indices: 1058768--1059246 Score: 355
Period size: 113 Copynumber: 4.2 Consensus size: 115
1058758 TTCTTCCAAT
*
1058768 TCCACGACTTAGTGGCATCTCTTCTCTAAGTCCACAACTCCGTGGCA-C---TC-TTTTAAGTTC
1 TCCACGACTTAGTGGCAT-TCTTCTCTAAGTCCACAACTCCGTGGCACCTTTTCTTTTTAAGTCC
* * * *
1058828 ACAACTCTGTGGCACCCTCTTAAGTCCACAACTTTGTGGCACCC-TCTTAAG
65 ACAACTCTGTGGCA-CCTTTTAAGTTCACAACTCTGTGGCACCCTTCTAAAG
* * * * **
1058879 TCCACAACTCT-GTGGCA-CCTT-TTTAAGTCCACAACTCCGTGGCACCTTTT-TCCTTTAAACC
1 TCCACGACT-TAGTGGCATTCTTCTCTAAGTCCACAACTCCGTGGCACCTTTTCT-TTTTAAGTC
*
1058940 CACAACTCTATGGCATCCTTTTAAGTTCACAACTCTGTGGCACCCTTC-AAAG
64 CACAACTCTGTGGCA-CCTTTTAAGTTCACAACTCTGTGGCACCCTTCTAAAG
* *
1058992 TCCACGACTTAATGGCATTTCTTCTCTAAGTCCACGACAT-CGTGGCACCTTTTCTTTTTAAGTC
1 TCCACGACTTAGTGGCA-TTCTTCTCTAAGTCCACAAC-TCCGTGGCACCTTTTCTTTTTAAGTC
* * * *
1059056 CACAACTTTGTGGCACTCTTTTAAG-TCTACAGCTCCGTGGCACCCTTTTTCTTTTTTAAG
64 CACAACTCTGTGGCAC-CTTTTAAGTTC-ACAACTCTGTGGCACCC---TTC----TAAAG
** ** * * * * * *
1059116 TCCATAACTCCGTGGCA-CCTT-TTTAAGTCCACAACTTCGTGGTACCTTTT-TCCTTCAAGTCC
1 TCCACGACTTAGTGGCATTCTTCTCTAAGTCCACAACTCCGTGGCACCTTTTCT-TTTTAAGTCC
* * * * * *
1059178 ATAACTTTGTGGCATCATTTTAAGTCCACAACTTCAG-GGTACCCTTC-AAAG
65 ACAACTCTGTGGCA-CCTTTTAAGTTCACAAC-TCTGTGGCACCCTTCTAAAG
1059229 TCCACGACTTAGTGGCAT
1 TCCACGACTTAGTGGCAT
1059247 CTTTTTTCTT
Statistics
Matches: 290, Mismatches: 48, Indels: 57
0.73 0.12 0.14
Matches are distributed among these distances:
108 22 0.08
109 4 0.01
111 14 0.05
112 3 0.01
113 77 0.27
114 2 0.01
115 6 0.02
116 67 0.23
117 2 0.01
118 3 0.01
119 3 0.01
120 2 0.01
121 62 0.21
122 8 0.03
124 15 0.05
ACGTcount: A:0.22, C:0.30, G:0.14, T:0.33
Consensus pattern (115 bp):
TCCACGACTTAGTGGCATTCTTCTCTAAGTCCACAACTCCGTGGCACCTTTTCTTTTTAAGTCCA
CAACTCTGTGGCACCTTTTAAGTTCACAACTCTGTGGCACCCTTCTAAAG
Found at i:1059077 original size:33 final size:33
Alignment explanation
Indices: 1059009--1059077 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 33
1058999 CTTAATGGCA
*
1059009 TTTCTTCTCTAAGTCCACGACATCGTGGCACCT
1 TTTCTTCTCTAAGTCCACAACATCGTGGCACCT
* * *
1059042 TTTCTT-TTTAAGTCCACAACTTTGTGGCACTCT
1 TTTCTTCTCTAAGTCCACAACATCGTGGCAC-CT
1059075 TTT
1 TTT
1059078 AAGTCTACAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 20 0.65
33 11 0.35
ACGTcount: A:0.17, C:0.28, G:0.13, T:0.42
Consensus pattern (33 bp):
TTTCTTCTCTAAGTCCACAACATCGTGGCACCT
Found at i:1059116 original size:35 final size:34
Alignment explanation
Indices: 1059074--1059139 Score: 96
Period size: 35 Copynumber: 1.9 Consensus size: 34
1059064 TGTGGCACTC
* *
1059074 TTTTAAGTCTACAGCTCCGTGGCACCCTTTTTCTT
1 TTTTAAGTCCACAACTCCGTGGCA-CCTTTTTCTT
*
1059109 TTTTAAGTCCATAACTCCGTGGCACCTTTTT
1 TTTTAAGTCCACAACTCCGTGGCACCTTTTT
1059140 AAGTCCACAA
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:0.17, C:0.27, G:0.14, T:0.42
Consensus pattern (34 bp):
TTTTAAGTCCACAACTCCGTGGCACCTTTTTCTT
Found at i:1059210 original size:27 final size:27
Alignment explanation
Indices: 1059108--1059347 Score: 95
Period size: 27 Copynumber: 8.2 Consensus size: 27
1059098 CCCTTTTTCT
* * *
1059108 TTTTTAAGTCCATAACTCCGTGGCACC
1 TTTTTAAGTCCACAACTTCGTGGCATC
* *
1059135 TTTTTAAGTCCACAACTTCGTGGTACCTT
1 TTTTTAAGTCCACAACTTCGTGG--CATC
* *
1059164 TTTCCTTCAAGTCCATAACTTTGTGGCATC
1 TTT--TT-AAGTCCACAACTTCGTGGCATC
* * *
1059194 ATTTTAAGTCCACAACTTCAG-GGTACC
1 TTTTTAAGTCCACAACTTC-GTGGCATC
* ** * *
1059221 CTTCAAAGTCCACGACTTAGTGGCATC
1 TTTTTAAGTCCACAACTTCGTGGCATC
* **
1059248 TTTTTTCTTCCAAGTCCACGACTTAATGGCATC
1 ---TTT-TT--AAGTCCACAACTTCGTGGCATC
*
1059281 TCTTCTCTAAGTCCACAACTCCGTGGCACCTTTTC
1 T-TT-T-TAAGTCCACAACTTCGTGGCA-----TC
* * *
1059316 CTTTTAAGTCCACAACTTCGTGGTACC
1 TTTTTAAGTCCACAACTTCGTGGCATC
1059343 TTTTT
1 TTTTT
1059348 CTTTTCAAAG
Statistics
Matches: 159, Mismatches: 34, Indels: 40
0.68 0.15 0.17
Matches are distributed among these distances:
26 1 0.01
27 60 0.38
28 3 0.02
29 4 0.03
30 23 0.14
31 6 0.04
32 36 0.23
33 22 0.14
34 2 0.01
35 2 0.01
ACGTcount: A:0.22, C:0.28, G:0.14, T:0.36
Consensus pattern (27 bp):
TTTTTAAGTCCACAACTTCGTGGCATC
Found at i:1059225 original size:237 final size:224
Alignment explanation
Indices: 1058768--1059310 Score: 604
Period size: 237 Copynumber: 2.3 Consensus size: 224
1058758 TTCTTCCAAT
* * *
1058768 TCCACGACTTAGTGGCATCTCTTCTCTAAGTCCACAACTCCGTGGCACTCTTTTAAGTTCACAAC
1 TCCACGACTTAGTGGCATTTCTTCTCTAAGTCCACGACTCCGTGGCACTCTTTTAAGTCCACAAC
** *
1058833 TCTGTGGCACCCTCTTAAGTCCACAACTTTGTGGCACCCTCTTAAGTCCACAACTCTGTGGCACC
66 TCTGTGGCACCCTCTTAAGTCCACAACTCCGTGGCACCCTCTTAAGTCCACAACTCCGTGGCACC
* *
1058898 TTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTTAAACCCACAACTCTATGGCATCCTTTTA
131 TTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTCAAACCCACAACTCTATGGCATCATTTTA
* *
1058963 AGTTCACAACTCTGTGGCACCCTTCAAAG
196 AGTCCACAACTCAGTGGCACCCTTCAAAG
*
1058992 TCCACGACTTAATGGCATTTCTTCTCTAAGTCCACGACAT-CGTGGCACCTTTTCTTTTTAAGTC
1 TCCACGACTTAGTGGCATTTCTTCTCTAAGTCCACGAC-TCCGTGGCA-C---TC-TTTTAAGTC
* * * * * *
1059056 CACAACTTTGTGGCACTCTTTTAAGTCTACAGCTCCGTGGCACCCTTTTTCTTTTTTAAGTCCAT
60 CACAACTCTGTGGCACCCTCTTAAGTCCACAACTCCGTGGCACCC----TC----TTAAGTCCAC
* * ** * *
1059121 AACTCCGTGGCACCTTTTTAAGTCCACAACTTCGTGGTACCTTTTTCCTTCAAGTCCATAACTTT
117 AACTCCGTGGCACCTTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTCAAACCCACAACTCT
* *
1059186 GTGGCATCATTTTAAGTCCACAACTTCAG-GGTACCCTTCAAAG
182 ATGGCATCATTTTAAGTCCACAAC-TCAGTGGCACCCTTCAAAG
* * ***
1059229 TCCACGACTTAGTGGCATCTTTTTTCTTCCAAGTCCACGACTTAATGGCATCTCTTCTCTAAGTC
1 TCCACGACTTAGTGGCA--TTTCTTC-TCTAAGTCCACGACTCCGTGGCA-CTCTT-T-TAAGTC
*
1059294 CACAACTCCGTGGCACC
60 CACAACTCTGTGGCACC
1059311 TTTTCCTTTT
Statistics
Matches: 264, Mismatches: 34, Indels: 28
0.81 0.10 0.09
Matches are distributed among these distances:
224 42 0.16
225 2 0.01
228 2 0.01
229 46 0.17
233 2 0.01
236 2 0.01
237 119 0.45
238 23 0.09
239 7 0.03
240 19 0.07
ACGTcount: A:0.22, C:0.31, G:0.14, T:0.33
Consensus pattern (224 bp):
TCCACGACTTAGTGGCATTTCTTCTCTAAGTCCACGACTCCGTGGCACTCTTTTAAGTCCACAAC
TCTGTGGCACCCTCTTAAGTCCACAACTCCGTGGCACCCTCTTAAGTCCACAACTCCGTGGCACC
TTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTCAAACCCACAACTCTATGGCATCATTTTA
AGTCCACAACTCAGTGGCACCCTTCAAAG
Found at i:1059364 original size:34 final size:32
Alignment explanation
Indices: 1059288--1059408 Score: 127
Period size: 32 Copynumber: 3.7 Consensus size: 32
1059278 ATCTCTTCTC
*
1059288 TAAGTCCACAACTCCGTGGCACCTTTTCCTTT
1 TAAGGCCACAACTCCGTGGCACCTTTTCCTTT
* * * *
1059320 TAAGTCCACAACTTCGTGGTACCTTTTTCTTT
1 TAAGGCCACAACTCCGTGGCACCTTTTCCTTT
* *
1059352 TCAAAGGCCACAACTCTGTGGCA-TTTCTTCCTTT
1 T--AAGGCCACAACTCCGTGGCACCTT-TTCCTTT
* *
1059386 TAAGTCCACAACTCCATGGCACC
1 TAAGGCCACAACTCCGTGGCACC
1059409 CTTCAAAGCC
Statistics
Matches: 72, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
32 47 0.65
33 2 0.03
34 23 0.32
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.34
Consensus pattern (32 bp):
TAAGGCCACAACTCCGTGGCACCTTTTCCTTT
Found at i:1059454 original size:32 final size:32
Alignment explanation
Indices: 1059402--1059752 Score: 391
Period size: 32 Copynumber: 11.2 Consensus size: 32
1059392 CACAACTCCA
1059402 TGGC-ACCC-TTC-AAAGCCCACACAAGTTGG
1 TGGCAACCCTTTCTAAAGCCCACACAAGTTGG
1059431 TGGCAACCCTTTCTAAAGCCCACACAAGTTGG
1 TGGCAACCCTTTCTAAAGCCCACACAAGTTGG
*
1059463 TGGCAACCTTCTTC-AAAGCCCACACAAGTTGG
1 TGGCAACCCT-TTCTAAAGCCCACACAAGTTGG
*
1059495 TGGCAACCCTTTTTAAAGCCCACACAAGTTGG
1 TGGCAACCCTTTCTAAAGCCCACACAAGTTGG
*
1059527 TGGCAACCTTCTTC-AAAGCCCACACAAGTTGG
1 TGGCAACCCT-TTCTAAAGCCCACACAAGTTGG
*
1059559 TGGC-ACCCTTTTTAAAGCCCACACAAGTTGG
1 TGGCAACCCTTTCTAAAGCCCACACAAGTTGG
* * *
1059590 TGGTAA-CCTTTTTCAAAGTCCACACAAGTTGG
1 TGGCAACCCTTTCT-AAAGCCCACACAAGTTGG
* * *** * *
1059622 TGGCAA-CCTCTTCAAAAGGCTTGATAAGTCGG
1 TGGCAACCCT-TTCTAAAGCCCACACAAGTTGG
*
1059654 TGGCAACCCCTTC-AAAG-CCACACAAGTTGG
1 TGGCAACCCTTTCTAAAGCCCACACAAGTTGG
* * *
1059684 TGGTAACCCTTTTTAAAGCCCACACAA-TTCAG
1 TGGCAACCCTTTCTAAAGCCCACACAAGTT-GG
* **
1059716 TGGCAACCATTTGAAAAGCCCACACAAGTTGG
1 TGGCAACCCTTTCTAAAGCCCACACAAGTTGG
1059748 TGGCA
1 TGGCA
1059753 TCTCCTTCTA
Statistics
Matches: 274, Mismatches: 33, Indels: 27
0.82 0.10 0.08
Matches are distributed among these distances:
29 4 0.01
30 24 0.09
31 47 0.17
32 188 0.69
33 11 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (32 bp):
TGGCAACCCTTTCTAAAGCCCACACAAGTTGG
Found at i:1059493 original size:64 final size:64
Alignment explanation
Indices: 1059409--1059752 Score: 466
Period size: 64 Copynumber: 5.4 Consensus size: 64
1059399 CCATGGCACC
*
1059409 CTTCAAAGCCCACACAAGTTGGTGGCAACCCTTTCTAAAGCCCACACAAGTTGGTGGCAACCTT
1 CTTCAAAGCCCACACAAGTTGGTGGCAACCCTTTTTAAAGCCCACACAAGTTGGTGGCAACCTT
1059473 CTTCAAAGCCCACACAAGTTGGTGGCAACCCTTTTTAAAGCCCACACAAGTTGGTGGCAACCTT
1 CTTCAAAGCCCACACAAGTTGGTGGCAACCCTTTTTAAAGCCCACACAAGTTGGTGGCAACCTT
*
1059537 CTTCAAAGCCCACACAAGTTGGTGGC-ACCCTTTTTAAAGCCCACACAAGTTGGTGGTAACCTT
1 CTTCAAAGCCCACACAAGTTGGTGGCAACCCTTTTTAAAGCCCACACAAGTTGGTGGCAACCTT
* * ** * *** * * *
1059600 TTTCAAAGTCCACACAAGTTGGTGGCAA-CCTCTTCAAAAGGCTTGATAAGTCGGTGGCAACC-C
1 CTTCAAAGCCCACACAAGTTGGTGGCAACCCT-TTTTAAAGCCCACACAAGTTGGTGGCAACCTT
* *
1059663 CTTCAAAG-CCACACAAGTTGGTGGTAACCCTTTTTAAAGCCCACACAA-TTCAGTGGCAACCAT
1 CTTCAAAGCCCACACAAGTTGGTGGCAACCCTTTTTAAAGCCCACACAAGTT-GGTGGCAACC-T
1059726 T
64 T
**
1059727 -TGAAAAGCCCACACAAGTTGGTGGCA
1 CTTCAAAGCCCACACAAGTTGGTGGCA
1059753 TCTCCTTCTA
Statistics
Matches: 244, Mismatches: 29, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
61 1 0.00
62 37 0.15
63 78 0.32
64 128 0.52
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (64 bp):
CTTCAAAGCCCACACAAGTTGGTGGCAACCCTTTTTAAAGCCCACACAAGTTGGTGGCAACCTT
Found at i:1059598 original size:127 final size:125
Alignment explanation
Indices: 1059407--1059752 Score: 455
Period size: 127 Copynumber: 2.7 Consensus size: 125
1059397 CTCCATGGCA
*
1059407 CCCTTCAAAGCCCACACAAGTTGGTGGCAACCCTTTCTAAAGCCCACACAAGTTGGTGGCAACCT
1 CCCTTCAAAGCCCACACAAGTTGGTGGC-ACCCTTTTTAAAGCCCACACAAGTTGGTGGCAACCT
** *
1059472 TCTTCAAAGCCCACACAAGTTGGTGGCAACC-CTTTTTAAAGCCCACACAAGTTGGTGGCAAC
65 T-TTCAAAGCCCACACAAGTTGGTGGCAACCTC-TTCAAAAGCCCACACAAGTCGGTGGCAAC
* *
1059534 CTTCTTCAAAGCCCACACAAGTTGGTGGCACCCTTTTTAAAGCCCACACAAGTTGGTGGTAACCT
1 C-CCTTCAAAGCCCACACAAGTTGGTGGCACCCTTTTTAAAGCCCACACAAGTTGGTGGCAACC-
* * *** *
1059599 TTTTCAAAGTCCACACAAGTTGGTGGCAACCTCTTCAAAAGGCTTGATAAGTCGGTGGCAAC
64 TTTTCAAAGCCCACACAAGTTGGTGGCAACCTCTTCAAAAGCCCACACAAGTCGGTGGCAAC
* *
1059661 CCCTTCAAAG-CCACACAAGTTGGTGGTAACCCTTTTTAAAGCCCACACAA-TTCAGTGGCAACC
1 CCCTTCAAAGCCCACACAAGTTGGTGG-CACCCTTTTTAAAGCCCACACAAGTT-GGTGGCAACC
**
1059724 ATTTGAAAAGCCCACACAAGTTGGTGGCA
64 -TTTTCAAAGCCCACACAAGTTGGTGGCA
1059753 TCTCCTTCTA
Statistics
Matches: 194, Mismatches: 20, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
125 18 0.09
126 63 0.32
127 84 0.43
128 29 0.15
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (125 bp):
CCCTTCAAAGCCCACACAAGTTGGTGGCACCCTTTTTAAAGCCCACACAAGTTGGTGGCAACCTT
TTCAAAGCCCACACAAGTTGGTGGCAACCTCTTCAAAAGCCCACACAAGTCGGTGGCAAC
Found at i:1059813 original size:43 final size:43
Alignment explanation
Indices: 1059756--1059848 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 43
1059746 GGTGGCATCT
* * *
1059756 CCTTCTAAGTCCAATGTTATTGGCCTTAAATCAGCACATTGGCA
1 CCTT-TAAGTCCAATATCATTGGCCTTAAATCAGCACATTAGCA
* * *
1059800 CCTTTAAGTCCAATATCGTTGGCCTTGAATTAGCACATTAGCA
1 CCTTTAAGTCCAATATCATTGGCCTTAAATCAGCACATTAGCA
1059843 CCTTTA
1 CCTTTA
1059849 TTATCTTTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 39 0.91
44 4 0.09
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (43 bp):
CCTTTAAGTCCAATATCATTGGCCTTAAATCAGCACATTAGCA
Found at i:1059971 original size:52 final size:51
Alignment explanation
Indices: 1059804--1060048 Score: 176
Period size: 52 Copynumber: 4.7 Consensus size: 51
1059794 TTGGCACCTT
* * * * * * *
1059804 TAAGTCCAATATCGTTGGCCTTGAATTAGCACATTAGCACCTTTATTATCTT-
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATC-TT-TCATCTTC
* * *
1059856 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCATCTTTAACAT-TCC
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTT--CATCTTC
*
1059908 TAAGCCCAATGTCGCTGGCCTTGAATAAGCACATTGGCATTCTTCTCATCTTC
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-TCTT-TCATCTTC
* * * * ** *
1059961 -AGGTCTAATGTCACT-AACTGTGAATCAGCACATTGACATTCTTTTCATC-TC
1 TAAGCCCAATGTCGCTGGCCT-TGAATCAGCACATTGGCA-TC-TTTCATCTTC
* * * *
1060012 TAAGCCTAATATCGTTGGCCTTGAATCAGCATATTGG
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGG
1060049 TACTTTTATC
Statistics
Matches: 154, Mismatches: 29, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
50 1 0.01
51 7 0.05
52 135 0.88
53 10 0.06
54 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (51 bp):
TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTCATCTTC
Found at i:1060100 original size:61 final size:61
Alignment explanation
Indices: 1059997--1060133 Score: 145
Period size: 61 Copynumber: 2.2 Consensus size: 61
1059987 AGCACATTGA
* * * * * * *
1059997 CATTCTTT-TCATCTCTAAGCCTAATATCGTTGGCCTTGAATCAGCATATTGGTAC-T-TTTAT
1 CATT-TTTCTCATCTTTAAGCCCAATATCGCTAGCCCTAAATCAGCATA-TCG-ACATCTTTAT
*
1060058 CATTTTTCTCATCTTTAAGCCCAATATCGCTAGCCCTAAATCAGTATATCGACATCTTTAT
1 CATTTTTCTCATCTTTAAGCCCAATATCGCTAGCCCTAAATCAGCATATCGACATCTTTAT
*
1060119 CATTCTTCTCATCTT
1 CATTTTTCTCATCTT
1060134 CATCATCTTT
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
59 2 0.03
60 6 0.09
61 56 0.88
ACGTcount: A:0.24, C:0.25, G:0.09, T:0.42
Consensus pattern (61 bp):
CATTTTTCTCATCTTTAAGCCCAATATCGCTAGCCCTAAATCAGCATATCGACATCTTTAT
Found at i:1060767 original size:13 final size:13
Alignment explanation
Indices: 1060749--1060774 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1060739 TTTTATAATT
1060749 TGTATCGATACAA
1 TGTATCGATACAA
1060762 TGTATCGATACAA
1 TGTATCGATACAA
1060775 AACTACCCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1060814 original size:39 final size:39
Alignment explanation
Indices: 1060760--1060851 Score: 166
Period size: 39 Copynumber: 2.4 Consensus size: 39
1060750 GTATCGATAC
1060760 AATGTATCGATACAAAACTACCCTACATACTAACAAGGA
1 AATGTATCGATACAAAACTACCCTACATACTAACAAGGA
* *
1060799 AATGTATCAATACAAAACTACCCTACATACTACCAAGGA
1 AATGTATCGATACAAAACTACCCTACATACTAACAAGGA
1060838 AATGTATCGATACA
1 AATGTATCGATACA
1060852 TTTATCATTG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.46, C:0.23, G:0.10, T:0.22
Consensus pattern (39 bp):
AATGTATCGATACAAAACTACCCTACATACTAACAAGGA
Found at i:1084599 original size:19 final size:18
Alignment explanation
Indices: 1084554--1084611 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 18
1084544 ACTGCCAGTT
1084554 TCATGTATCGATACAATTG
1 TCATGTATCGATACAA-TG
1084573 TCCATGTATCGATACAATG
1 T-CATGTATCGATACAATG
*
1084592 ATCATGTATCAATACAATG
1 -TCATGTATCGATACAATG
1084611 T
1 T
1084612 ATCGATACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
18 1 0.03
19 19 0.53
20 16 0.44
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (18 bp):
TCATGTATCGATACAATG
Found at i:1084637 original size:33 final size:32
Alignment explanation
Indices: 1084576--1084640 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
1084566 ACAATTGTCC
* *
1084576 ATGTATCGATACAATGATCATGTATCAATACA
1 ATGTATCGATACAAAGATAATGTATCAATACA
1084608 ATGTATCGATACAAAGCATAATGTATCAATACA
1 ATGTATCGATACAAAG-ATAATGTATCAATACA
1084641 TTCAAGGGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.29
Consensus pattern (32 bp):
ATGTATCGATACAAAGATAATGTATCAATACA
Found at i:1085259 original size:48 final size:48
Alignment explanation
Indices: 1085184--1085288 Score: 165
Period size: 48 Copynumber: 2.2 Consensus size: 48
1085174 TGCTTATATT
* * * *
1085184 TAAAAAATTCTCCCCCTTAATCGGTTAAAGAGATTTTTTCTCCCTAGA
1 TAAAAATTTCTCCCCCTTAATCAGTTAAAGAGATTTTCTCCCCCTAGA
*
1085232 TAAAAATTTGTCCCCCTTAATCAGTTAAAGAGATTTTCTCCCCCTAGA
1 TAAAAATTTCTCCCCCTTAATCAGTTAAAGAGATTTTCTCCCCCTAGA
1085280 TAAAAATTT
1 TAAAAATTT
1085289 ATTTTTCAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.35
Consensus pattern (48 bp):
TAAAAATTTCTCCCCCTTAATCAGTTAAAGAGATTTTCTCCCCCTAGA
Found at i:1087180 original size:13 final size:13
Alignment explanation
Indices: 1087158--1087194 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
1087148 GTAACCCATA
1087158 TATCGATACAATG
1 TATCGATACAATG
*
1087171 TATGGATACAATG
1 TATCGATACAATG
1087184 TATCGATACAA
1 TATCGATACAA
1087195 GGAATGCTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.30
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:1091331 original size:15 final size:16
Alignment explanation
Indices: 1091295--1091336 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
1091285 TTTCTTCGAG
*
1091295 ATTTTTATTTTCAATA
1 ATTTTTAATTTCAATA
1091311 ATTTTTAATTTCAATA
1 ATTTTTAATTTCAATA
1091327 A-TTTTAATTT
1 ATTTTTAATTT
1091337 ATTTTCTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 9 0.36
16 16 0.64
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTTTTAATTTCAATA
Found at i:1091776 original size:9 final size:9
Alignment explanation
Indices: 1091762--1091795 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
1091752 TCCGAGTCAC
1091762 CATCATTAT
1 CATCATTAT
1091771 CATCATTAT
1 CATCATTAT
*
1091780 CATCTTTAT
1 CATCATTAT
1091789 CATCATT
1 CATCATT
1091796 GGTGGTTGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.47
Consensus pattern (9 bp):
CATCATTAT
Found at i:1093420 original size:13 final size:13
Alignment explanation
Indices: 1093401--1093431 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1093391 ACAATTCATT
1093401 ATGTATCGATACA
1 ATGTATCGATACA
*
1093414 TTGTATCGATACA
1 ATGTATCGATACA
1093427 ATGTA
1 ATGTA
1093432 CCATGTATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1093426 original size:33 final size:33
Alignment explanation
Indices: 1093384--1093446 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
1093374 AAAAGCAATA
**
1093384 TATCGATACAAT-TCATTATGTATCGATACATTG
1 TATCGATACAATGT-ACCATGTATCGATACATTG
1093417 TATCGATACAATGTACCATGTATCGATACA
1 TATCGATACAATGTACCATGTATCGATACA
1093447 AACAGTGGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 26 0.96
34 1 0.04
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (33 bp):
TATCGATACAATGTACCATGTATCGATACATTG
Found at i:1093520 original size:19 final size:19
Alignment explanation
Indices: 1093475--1093528 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
1093465 ACTGCCAGTT
1093475 TCATGTATCGATACAATTG
1 TCATGTATCGATACAATTG
1093494 TCCATGTATCGATACAA-TG
1 T-CATGTATCGATACAATTG
*
1093513 ATCATGTATTGATACA
1 -TCATGTATCGATACA
1093529 TCTAGATGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (19 bp):
TCATGTATCGATACAATTG
Found at i:1097481 original size:159 final size:159
Alignment explanation
Indices: 1097276--1097567 Score: 417
Period size: 159 Copynumber: 1.8 Consensus size: 159
1097266 CAAAAGTATT
* * *
1097276 AATTCAATTCAATTTTATTATTTTTGAAAATACTGTTTCGCACCCTAATAGAGGCCCGATAGAAT
1 AATTCAATTCAATTTTATTATTTTTGAAAATACTATTTCGCACCCTAATAGAAGCCCGAAAGAAT
* * * *
1097341 ACGAAAAGGTTTTTTAAATCTTTTATA-CCCCTACAGA-TGTAGGAATATAAAAGATTAGAAAAA
66 ACG-AAAGGTTTTTGAAAACTTTTATATCCCCTACAGACTATAGGAATATAAAAGACTAGAAAAA
1097404 AAAAATATTAGAATTTATCCCAATAATATC
130 AAAAATATTAGAATTTATCCCAATAATATC
* * * *
1097434 AATTTAATTTAATTTTATTTATTTTTGAAAATACTATTTCGTACCCTAATGGAAGCCCGAAAGAA
1 AATTCAATTCAATTTTA-TTATTTTTGAAAATACTATTTCGCACCCTAATAGAAGCCCGAAAGAA
*
1097499 TACGAAAGGTTTTTGAAAACTTTTATATCCCCTACGGATTCCTATAGGAATATAAAAGACTAGAA
65 TACGAAAGGTTTTTGAAAACTTTTATATCCCCTACAGA---CTATAGGAATATAAAAGACTAGAA
1097564 AAAA
127 AAAA
1097568 TACCTATTAT
Statistics
Matches: 116, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
158 36 0.31
159 55 0.47
163 25 0.22
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (159 bp):
AATTCAATTCAATTTTATTATTTTTGAAAATACTATTTCGCACCCTAATAGAAGCCCGAAAGAAT
ACGAAAGGTTTTTGAAAACTTTTATATCCCCTACAGACTATAGGAATATAAAAGACTAGAAAAAA
AAAATATTAGAATTTATCCCAATAATATC
Found at i:1098529 original size:13 final size:13
Alignment explanation
Indices: 1098513--1098547 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
1098503 CTTTTTGTTT
1098513 TCTTTTTTCTCTC
1 TCTTTTTTCTCTC
1098526 TCTTTTTTCTCTC
1 TCTTTTTTCTCTC
*
1098539 CCTTTTTTC
1 TCTTTTTTC
1098548 AGCTGAACTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (13 bp):
TCTTTTTTCTCTC
Found at i:1102359 original size:21 final size:20
Alignment explanation
Indices: 1102334--1102379 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
1102324 ACCTAGCTTA
1102334 AAATA-TAATTACATACTTTAT
1 AAATATTAATT-CATA-TTTAT
*
1102355 AAATATTTATTCATATTTAT
1 AAATATTAATTCATATTTAT
1102375 AAATA
1 AAATA
1102380 AATAGTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 10 0.43
21 9 0.39
22 4 0.17
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.46
Consensus pattern (20 bp):
AAATATTAATTCATATTTAT
Found at i:1110702 original size:18 final size:18
Alignment explanation
Indices: 1110676--1110715 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1110666 TTAAGAATGT
*
1110676 AAAAGAATAAAAAATTTA
1 AAAAGAATAAAAAAGTTA
* *
1110694 AAAATAATAAAAGAGTTA
1 AAAAGAATAAAAAAGTTA
1110712 AAAA
1 AAAA
1110716 AGGAAAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.20
Consensus pattern (18 bp):
AAAAGAATAAAAAAGTTA
Done.