Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 308 of 444
Found at i:88760099 original size:65 final size:66
Alignment explanation
Indices: 88760004--88760161 Score: 176
Period size: 65 Copynumber: 2.4 Consensus size: 66
88759994 TTGACTATGT
* * *
88760004 AGGTTGGGCATATGGATTAGCACTTAGCTGTACAGGTTG-GCCATATGCATTAGCAT-TGGCTGA
1 AGGTTGGCCATATGGATTAGCATTTGGCTGTACAGGTTGAGCC-TATGCATTAGCATGTGGCTGA
88760067 GA
65 GA
* * * * * * * *
88760069 AGTTTGGCCGTGTGGATTAGCATTTGGCTGTGCAGTTTGAGCCTATGGATTAGCATGTTGCTGTG
1 AGGTTGGCCATATGGATTAGCATTTGGCTGTACAGGTTGAGCCTATGCATTAGCATGTGGCTGAG
*
88760134 C
66 A
*
88760135 AGGTTGGTCATATGGATTAGCATTTGG
1 AGGTTGGCCATATGGATTAGCATTTGG
88760162 TCGTGCAGGT
Statistics
Matches: 75, Mismatches: 16, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
65 43 0.57
66 32 0.43
ACGTcount: A:0.20, C:0.14, G:0.32, T:0.34
Consensus pattern (66 bp):
AGGTTGGCCATATGGATTAGCATTTGGCTGTACAGGTTGAGCCTATGCATTAGCATGTGGCTGAG
A
Found at i:88760168 original size:33 final size:33
Alignment explanation
Indices: 88760004--88760172 Score: 175
Period size: 33 Copynumber: 5.2 Consensus size: 33
88759994 TTGACTATGT
* * * *
88760004 AGGTTGGGCATATGGATTAGCACTTAGCTGTAC
1 AGGTTGGCCATATGGATTAGCATTTGGCTGTGC
* * *
88760037 AGGTTGGCCATATGCATTAGCA-TTGGCTGAGA
1 AGGTTGGCCATATGGATTAGCATTTGGCTGTGC
* * *
88760069 AGTTTGGCCGTGTGGATTAGCATTTGGCTGTGC
1 AGGTTGGCCATATGGATTAGCATTTGGCTGTGC
*
88760102 AGTTTGAGCC-TATGGATTAGCATGTT-GCTGTGC
1 AGGTTG-GCCATATGGATTAGCAT-TTGGCTGTGC
*
88760135 AGGTTGGTCATATGGATTAGCATTTGG-TCGTGC
1 AGGTTGGCCATATGGATTAGCATTTGGCT-GTGC
88760168 AGGTT
1 AGGTT
88760173 CTGTACGGAC
Statistics
Matches: 115, Mismatches: 15, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
32 29 0.25
33 81 0.70
34 5 0.04
ACGTcount: A:0.20, C:0.14, G:0.33, T:0.34
Consensus pattern (33 bp):
AGGTTGGCCATATGGATTAGCATTTGGCTGTGC
Found at i:88762285 original size:22 final size:21
Alignment explanation
Indices: 88762259--88762302 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
88762249 CCAGCCAATT
88762259 GCTTC-AGCTTTTAGCAAGTGAA
1 GCTTCGAGCTTTT-GCAA-TGAA
88762281 GCTTCGAGCTTTTGCAATGAA
1 GCTTCGAGCTTTTGCAATGAA
88762302 G
1 G
88762303 TGTTGAGGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.24
22 9 0.43
23 7 0.33
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (21 bp):
GCTTCGAGCTTTTGCAATGAA
Found at i:88763368 original size:105 final size:103
Alignment explanation
Indices: 88763206--88763660 Score: 371
Period size: 105 Copynumber: 4.3 Consensus size: 103
88763196 AGTTCTGTAT
* * * * * * *
88763206 GTGACAAAATTAGGCTCAATGCATTGTTTTCTCATTGTGTCGACAATA-CATTCAGCTTCAGAAA
1 GTGACAACATCAGGCTCAATGCCTTGCTTTCTCATTGTGGCAACAATATC-TACAGCTTCAGAAA
* * * *
88763270 CCATCCCATTCTTGCAAAGTGCATCGATAAATATATTATAG
65 CCATCCC-TCCTTGCAAAGCGCATCAAT-AATATATTATAC
* ** * * *
88763311 GTGACAACATCAGGCTCCACACCTTGCTTTCTCATTGTGGCAATAGTATCTACAGCTTTAGAAA-
1 GTGACAACATCAGGCTCAATGCCTTGCTTTCTCATTGTGGCAACAATATCTACAGCTTCAGAAAC
* *
88763375 TACTCCTCTCCTTGCAATA-CGCATCAACCAATATATTATAC
66 CA-TCC-CTCCTTGCAA-AGCGCATCAA-TAATATATTATAC
* * * * * *
88763416 GTCACAACATCGGGCTCAATGCCTTCCTTTCTCATTGTGTCAACAATATCTTCGGCTTCAGAAAC
1 GTGACAACATCAGGCTCAATGCCTTGCTTTCTCATTGTGGCAACAATATCTACAGCTTCAGAAAC
* * * *
88763481 CCTCCCCTCCTTGCAATGCGCATCAACTAATGTACTATAC
66 CAT-CCCTCCTTGCAAAGCGCATCAA-TAATATATTATAC
* * * * *
88763521 GTGACAACATCAGGCTCAATGCCTTGCTTTCTCATTGTGTG-AACTACATCCAAAGATTCAGAAA
1 GTGACAACATCAGGCTCAATGCCTTGCTTTCTCATTGTG-GCAACAATATCTACAGCTTCAGAAA
** * * * * *
88763585 TTAGCCTCTCCTTGCACCA-TGCATCAACCAATATATTATAG
65 CCATCC-CTCCTTGCA-AAGCGCATCAA-TAATATATTATAC
**
88763626 GTGACAACATCAGGCTTGATGCCTTGCTTTCTCAT
1 GTGACAACATCAGGCTCAATGCCTTGCTTTCTCAT
88763661 CGCATTAAAG
Statistics
Matches: 278, Mismatches: 61, Indels: 22
0.77 0.17 0.06
Matches are distributed among these distances:
104 3 0.01
105 270 0.97
106 5 0.02
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (103 bp):
GTGACAACATCAGGCTCAATGCCTTGCTTTCTCATTGTGGCAACAATATCTACAGCTTCAGAAAC
CATCCCTCCTTGCAAAGCGCATCAATAATATATTATAC
Found at i:88763595 original size:210 final size:210
Alignment explanation
Indices: 88763217--88763660 Score: 529
Period size: 210 Copynumber: 2.1 Consensus size: 210
88763207 TGACAAAATT
* * * *
88763217 AGGCTCAATGCATTGTTTTCTCATTGTGTCGACAATACATTCAGCTTCAGAAACCATCCCATTCT
1 AGGCTCAATGCCTTGCTTTCTCATTGTGTCAACAATACATTCAGCTTCAGAAACCATCCCATCCT
* * * * *
88763282 TGCAAAGTGCATCGATAAATATATTATAGGTGACAACATCAGGCTCCACACCTTGCTTTCTCATT
66 TGCAAAGCGCATCAATAAATATACTATACGTGACAACATCAGGCTCAACACCTTGCTTTCTCATT
* * * * * * *
88763347 GTGGCAATAGTATCTACAGCTTTAGAAATACTCCTCTCCTTGCAATACGCATCAACCAATATATT
131 GTGGCAATAGCATCCAAAGATTCAGAAATACGCCTCTCCTTGCAACACGCATCAACCAATATATT
88763412 ATACGTCACAACATC
196 ATACGTCACAACATC
* * * * *
88763427 GGGCTCAATGCCTTCCTTTCTCATTGTGTCAACAATATC-TTCGGCTTCAGAAACCCTCCCCTCC
1 AGGCTCAATGCCTTGCTTTCTCATTGTGTCAACAATA-CATTCAGCTTCAGAAACCATCCCATCC
* * **
88763491 TTGCAATGCGCATCAACT-AATGTACTATACGTGACAACATCAGGCTCAATGCCTTGCTTTCTCA
65 TTGCAAAGCGCATCAA-TAAATATACTATACGTGACAACATCAGGCTCAACACCTTGCTTTCTCA
* *
88763555 TTGTGTG-AACTA-CATCCAAAGATTCAGAAATTA-GCCTCTCCTTGCACCATGCATCAACCAAT
129 TTGTG-GCAA-TAGCATCCAAAGATTCAGAAA-TACGCCTCTCCTTGCAACACGCATCAACCAAT
* *
88763617 ATATTATAGGTGACAACATC
191 ATATTATACGTCACAACATC
**
88763637 AGGCTTGATGCCTTGCTTTCTCAT
1 AGGCTCAATGCCTTGCTTTCTCAT
88763661 CGCATTAAAG
Statistics
Matches: 196, Mismatches: 33, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
210 189 0.96
211 7 0.04
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (210 bp):
AGGCTCAATGCCTTGCTTTCTCATTGTGTCAACAATACATTCAGCTTCAGAAACCATCCCATCCT
TGCAAAGCGCATCAATAAATATACTATACGTGACAACATCAGGCTCAACACCTTGCTTTCTCATT
GTGGCAATAGCATCCAAAGATTCAGAAATACGCCTCTCCTTGCAACACGCATCAACCAATATATT
ATACGTCACAACATC
Found at i:88763732 original size:210 final size:210
Alignment explanation
Indices: 88763248--88763744 Score: 508
Period size: 210 Copynumber: 2.4 Consensus size: 210
88763238 CATTGTGTCG
* * * * * * * *
88763248 ACAATA-CATTCAGCTTCAGAAACCATCCCATTCTTGCAAAGTGCATCGATAAATATATTATAGG
1 ACAATATC-TTCAGCTTCAGAAACCCTCCCCTCCTTGCAATGTGCATCAATCAATATGTTATACG
* * * * * *
88763312 TGACAACATCAGGCTCCACACCTTGCTTTCTCATTGTGGCAATAGTATCTACAGCTTTAGAAATA
65 TGACAACATCAGGCTCAACACCTTGCTTTCTCATTGTGGCAATAGCATCCAAAGATTCAGAAATA
* * *
88763377 CTCCTCTCCTTGCAATACGCATCAACCAATATATTATACGTCACAACATCGGGCTCAATGCCTTC
130 CGCCTCTCCTTGCAACACGCATCAACCAATATATTATACGTCACAACATCAGGCTCAATGCCTTC
* **
88763442 CTTTCTCATTGTGTCA
195 CTTTCTCATCGCATCA
* * *
88763458 ACAATATCTTCGGCTTCAGAAACCCTCCCCTCCTTGCAATGCGCATCAA-CTA-ATGTACTATAC
1 ACAATATCTTCAGCTTCAGAAACCCTCCCCTCCTTGCAATGTGCATCAATCAATATGT--TATAC
**
88763521 GTGACAACATCAGGCTCAATGCCTTGCTTTCTCATTGTGTG-AACTA-CATCCAAAGATTCAGAA
64 GTGACAACATCAGGCTCAACACCTTGCTTTCTCATTGTG-GCAA-TAGCATCCAAAGATTCAGAA
* * * * **
88763584 ATTA-GCCTCTCCTTGCACCATGCATCAACCAATATATTATAGGTGACAACATCAGGCTTGATGC
127 A-TACGCCTCTCCTTGCAACACGCATCAACCAATATATTATACGTCACAACATCAGGCTCAATGC
* *
88763648 CTTGCTTTCTCATCGCATTA
191 CTTCCTTTCTCATCGCATCA
***
88763668 A-AGATA-CTTACAGCTTCCA-AAATTGTCCCCTCCTTGCAATGTGCATCAATCAATATGTTATA
1 ACA-ATATCTT-CAGCTT-CAGAAACCCTCCCCTCCTTGCAATGTGCATCAATCAATATGTTATA
* *
88763730 CGTGAAAATATCAGG
63 CGTGACAACATCAGG
88763745 AGAAACATTG
Statistics
Matches: 235, Mismatches: 41, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
208 3 0.01
209 5 0.02
210 213 0.91
211 10 0.04
212 4 0.02
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (210 bp):
ACAATATCTTCAGCTTCAGAAACCCTCCCCTCCTTGCAATGTGCATCAATCAATATGTTATACGT
GACAACATCAGGCTCAACACCTTGCTTTCTCATTGTGGCAATAGCATCCAAAGATTCAGAAATAC
GCCTCTCCTTGCAACACGCATCAACCAATATATTATACGTCACAACATCAGGCTCAATGCCTTCC
TTTCTCATCGCATCA
Found at i:88764615 original size:342 final size:342
Alignment explanation
Indices: 88763990--88764674 Score: 1129
Period size: 342 Copynumber: 2.0 Consensus size: 342
88763980 CTTAGAAACT
* * * *
88763990 TAACAGCTCGACCAGTGTTCCCAGTCTTACACAACCCATTAAGTACTGTATTGTAAGCAACTGAA
1 TAACAGCTCGACCAGTGTTACCAGACTTACACAACCCATTAAGTACTGTATTGCAAGCAAATGAA
* * * * *
88764055 TCAGGTCGACACCCTTTTTTGATCATTTCATCAAACAAACTTGCAGCCTGAGAAACCTTGTTTTG
66 TCAGGTCGACACCCTTTTTCGATCATTTCATAAAACAAACTTACAGCCTGAGAAACCCTGCTTTG
88764120 ATTACAAAGTCCATTAATCAAAGTGGACAAAGTTACAACATCAGGTTCAAAACCTAACTTGAGCA
131 ATTACAAAGTCCATTAATCAAAGTGGACAAAGTTACAACATCAGGTTCAAAACCTAACTTGAGCA
*
88764185 TTTTCCCCAAAACAGAAAACCCAAAATCAACTTTACCTAACTGACAAAAGCAATTAATCAAAATG
196 TTTTCCCCAAAACAGAAAACCCAAAATCAACTTTACCTAAATGACAAAAGCAATTAATCAAAATG
* * * * * * *
88764250 TTGAAAGAATGAGCATCATGTGAAACTCCCCATAGTTTCATCTGGCTGCCCAGAGAAACAGCAAG
261 GTGAAAGAATAAGCATCATGTGAAACTCCCCATAATTCCATCTGGCTACCCAGAAAAACAACAAG
88764315 CGCATAATGTTTCATTC
326 CGCATAATGTTTCATTC
*
88764332 TAACAGCTCGACCAGTGTTACCAGACTTGCACAACCCATTAAGTACTGTATTGCAAGCAAATGAA
1 TAACAGCTCGACCAGTGTTACCAGACTTACACAACCCATTAAGTACTGTATTGCAAGCAAATGAA
* *
88764397 TCAGGTCGATACCCTTTTTCGATCATTTCATAAAAC-AATTTCACAGCCTGAGAAACCCTGCTTT
66 TCAGGTCGACACCCTTTTTCGATCATTTCATAAAACAAACTT-ACAGCCTGAGAAACCCTGCTTT
* *
88764461 GATTACAAAGTCCATTAATCAAGGTGGACAAAGTTACAACATTAGGTTCAAAACCTAACTTGAGC
130 GATTACAAAGTCCATTAATCAAAGTGGACAAAGTTACAACATCAGGTTCAAAACCTAACTTGAGC
*
88764526 ATTTTCCCCAAAACAGAAAACCCAAAATCAACTTTACCTAAATGACAAAAGCAATTAATCAAGAT
195 ATTTTCCCCAAAACAGAAAACCCAAAATCAACTTTACCTAAATGACAAAAGCAATTAATCAAAAT
* *
88764591 GGTGAAAGAATAAGCATTATGTGAAACTCCCCGTAATTCCATCTGGCTACCCAGAAAAACAACAA
260 GGTGAAAGAATAAGCATCATGTGAAACTCCCCATAATTCCATCTGGCTACCCAGAAAAACAACAA
88764656 GCGCATAATGTTTCATTC
325 GCGCATAATGTTTCATTC
88764674 T
1 T
88764675 GACAATGGCC
Statistics
Matches: 317, Mismatches: 25, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
341 4 0.01
342 313 0.99
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (342 bp):
TAACAGCTCGACCAGTGTTACCAGACTTACACAACCCATTAAGTACTGTATTGCAAGCAAATGAA
TCAGGTCGACACCCTTTTTCGATCATTTCATAAAACAAACTTACAGCCTGAGAAACCCTGCTTTG
ATTACAAAGTCCATTAATCAAAGTGGACAAAGTTACAACATCAGGTTCAAAACCTAACTTGAGCA
TTTTCCCCAAAACAGAAAACCCAAAATCAACTTTACCTAAATGACAAAAGCAATTAATCAAAATG
GTGAAAGAATAAGCATCATGTGAAACTCCCCATAATTCCATCTGGCTACCCAGAAAAACAACAAG
CGCATAATGTTTCATTC
Found at i:88766056 original size:13 final size:13
Alignment explanation
Indices: 88766038--88766088 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
88766028 ATTGAAATTT
88766038 ATAAAATTATTAA
1 ATAAAATTATTAA
88766051 ATAAAATT-TTAAA
1 ATAAAATTATT-AA
* **
88766064 AAAAAATTAAAAA
1 ATAAAATTATTAA
88766077 ATAAAAATTATT
1 AT-AAAATTATT
88766089 TAAAAGTTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
12 2 0.07
13 20 0.69
14 7 0.24
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
ATAAAATTATTAA
Found at i:88767652 original size:12 final size:13
Alignment explanation
Indices: 88767637--88767665 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
88767627 TAAGTAATAA
88767637 AATATTATTTTT-
1 AATATTATTTTTG
88767649 AATATTATTTTTG
1 AATATTATTTTTG
88767662 AATA
1 AATA
88767666 ATGAAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (13 bp):
AATATTATTTTTG
Found at i:88770351 original size:29 final size:29
Alignment explanation
Indices: 88770309--88770364 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
88770299 TATTCTGATC
88770309 TTCTGATTCGCATGTTAAGCATGCCATAT
1 TTCTGATTCGCATGTTAAGCATGCCATAT
*
88770338 TTCTGATTTGCATGTTAAGCATGCCAT
1 TTCTGATTCGCATGTTAAGCATGCCAT
88770365 TGTGATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (29 bp):
TTCTGATTCGCATGTTAAGCATGCCATAT
Found at i:88770600 original size:49 final size:49
Alignment explanation
Indices: 88770510--88770605 Score: 122
Period size: 49 Copynumber: 2.0 Consensus size: 49
88770500 TACGGAGGAA
* *
88770510 GTATCTGACAGTAAATCTGCATTATCAGGTGACTTGTCCACAATATTTT
1 GTATCTGACAGTAAATCTGCAATATCAGGTGACTTGACCACAATATTTT
* ** *
88770559 GTATCT-AGCAGTAAATCTGCAATATCTGGTGGTTTGACCACATTATT
1 GTATCTGA-CAGTAAATCTGCAATATCAGGTGACTTGACCACAATATT
88770606 CTATTTCTGG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
48 1 0.03
49 39 0.98
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (49 bp):
GTATCTGACAGTAAATCTGCAATATCAGGTGACTTGACCACAATATTTT
Found at i:88770747 original size:21 final size:22
Alignment explanation
Indices: 88770721--88770765 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
88770711 GGGTAGGATA
* *
88770721 TGTTTTTTTAAAAGT-TTGCAT
1 TGTTTTCTGAAAAGTGTTGCAT
88770742 TGTTTTCTGAAAAGTGTTGCAT
1 TGTTTTCTGAAAAGTGTTGCAT
88770764 TG
1 TG
88770766 ACATCGTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.22, C:0.07, G:0.20, T:0.51
Consensus pattern (22 bp):
TGTTTTCTGAAAAGTGTTGCAT
Found at i:88775470 original size:11 final size:11
Alignment explanation
Indices: 88775456--88775481 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
88775446 TTAACCCCAA
88775456 AACCATAGTTT
1 AACCATAGTTT
88775467 AACCATAGTTT
1 AACCATAGTTT
88775478 AACC
1 AACC
88775482 GATGACAGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (11 bp):
AACCATAGTTT
Found at i:88781390 original size:2 final size:2
Alignment explanation
Indices: 88781383--88781437 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
88781373 AATTAACTTG
88781383 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
88781425 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
88781438 CCGAGAAGTC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:88782301 original size:28 final size:28
Alignment explanation
Indices: 88782261--88782316 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
88782251 ATAAAGGGGC
*
88782261 GCTCTTGTGAGCTATGGTGTGTTCGCAA
1 GCTCTTATGAGCTATGGTGTGTTCGCAA
88782289 GCTCTTATGAGCTATGGTGTGTTCGCAA
1 GCTCTTATGAGCTATGGTGTGTTCGCAA
88782317 CATTTGCAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.16, C:0.18, G:0.30, T:0.36
Consensus pattern (28 bp):
GCTCTTATGAGCTATGGTGTGTTCGCAA
Found at i:88784083 original size:45 final size:45
Alignment explanation
Indices: 88784019--88784109 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
88784009 GAACTATGAA
*
88784019 ATCTGGACTCATTGAGTTGTGGTCTAAGTTCATGATATATGTGAC
1 ATCTGAACTCATTGAGTTGTGGTCTAAGTTCATGATATATGTGAC
* * *
88784064 ATCTGAACTCATTGAGTTGTGTTCTGAGTTCATGATGTATGTGAC
1 ATCTGAACTCATTGAGTTGTGGTCTAAGTTCATGATATATGTGAC
88784109 A
1 A
88784110 CATGTTTTGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.24, C:0.13, G:0.24, T:0.38
Consensus pattern (45 bp):
ATCTGAACTCATTGAGTTGTGGTCTAAGTTCATGATATATGTGAC
Found at i:88786163 original size:31 final size:31
Alignment explanation
Indices: 88786125--88786201 Score: 154
Period size: 31 Copynumber: 2.5 Consensus size: 31
88786115 GTGTCCCAAG
88786125 CCACACGGGCGTGTGTGACCACACGACCTAC
1 CCACACGGGCGTGTGTGACCACACGACCTAC
88786156 CCACACGGGCGTGTGTGACCACACGACCTAC
1 CCACACGGGCGTGTGTGACCACACGACCTAC
88786187 CCACACGGGCGTGTG
1 CCACACGGGCGTGTG
88786202 ACTCCTGTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.21, C:0.38, G:0.29, T:0.13
Consensus pattern (31 bp):
CCACACGGGCGTGTGTGACCACACGACCTAC
Found at i:88791142 original size:33 final size:33
Alignment explanation
Indices: 88791103--88791406 Score: 433
Period size: 33 Copynumber: 9.4 Consensus size: 33
88791093 CCCATTCCCA
*
88791103 TGTTCATCCCCATGCCTGCG-CTCATGCCCATAT
1 TGTTCATCCCCATGCCTG-GATTCATGCCCATAT
* *
88791136 TGTTCATCTCCATGCCTGGATTCATGCCCATGT
1 TGTTCATCCCCATGCCTGGATTCATGCCCATAT
88791169 TGTTCATCCCCATGCCTGGATTCATGCCC--A-
1 TGTTCATCCCCATGCCTGGATTCATGCCCATAT
**
88791199 TGTTCATCCCCATGCCTTTATTCATGCCCATAT
1 TGTTCATCCCCATGCCTGGATTCATGCCCATAT
**
88791232 TACTCATCCCCATGCCTGGATTCATGCCCATAT
1 TGTTCATCCCCATGCCTGGATTCATGCCCATAT
*
88791265 TGCTCATCCCCATGCCTGGATTCATGCCCATAT
1 TGTTCATCCCCATGCCTGGATTCATGCCCATAT
* *
88791298 TGCTCATCCCCATGCCTGGATTTATGCCCATAT
1 TGTTCATCCCCATGCCTGGATTCATGCCCATAT
* *
88791331 TGCTCATCCCCATGCCTGGATTCATGCCCATGT
1 TGTTCATCCCCATGCCTGGATTCATGCCCATAT
*
88791364 TGTTCATCCCCATGCCTGGGTTCATGCCC--A-
1 TGTTCATCCCCATGCCTGGATTCATGCCCATAT
88791394 TGTTCATCCCCAT
1 TGTTCATCCCCAT
88791407 TCCCATGCCC
Statistics
Matches: 249, Mismatches: 18, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
30 40 0.16
32 2 0.01
33 207 0.83
ACGTcount: A:0.17, C:0.36, G:0.15, T:0.33
Consensus pattern (33 bp):
TGTTCATCCCCATGCCTGGATTCATGCCCATAT
Found at i:88792242 original size:33 final size:33
Alignment explanation
Indices: 88792198--88792821 Score: 312
Period size: 33 Copynumber: 19.2 Consensus size: 33
88792188 AGACTGTGTG
* **
88792198 GGTTGGGCATATGGATTAGCACTTGGCTGAACA
1 GGTTGGCCATATGGATTAGCACTTGGCTGCGCA
* *
88792231 GGTTGGCCATATGGATTAGCA-TTAGGCTGTGTA
1 GGTTGGCCATATGGATTAGCACTT-GGCTGCGCA
* ** *
88792264 GGCTGGCTGTATGGATTAGCA-TTCGGCTGAGCA
1 GGTTGGCCATATGGATTAGCACTT-GGCTGCGCA
*** *
88792297 GGTTGGTTGTATGGATTAGCACTTGGCTGAGCA
1 GGTTGGCCATATGGATTAGCACTTGGCTGCGCA
* ** **
88792330 GGTTGGTCATATGGATTAGCA-TGTACCTGTACA
1 GGTTGGCCATATGGATTAGCACT-TGGCTGCGCA
** * * *
88792363 GGTTGGCTGTATGGATTAGCA-TTTGCTTGTGCT
1 GGTTGGCCATATGGATTAGCACTTGGC-TGCGCA
* * * * * *
88792396 GGTTGACTATACGGATTAGCATTTGGTTGTGCA
1 GGTTGGCCATATGGATTAGCACTTGGCTGCGCA
* * * * * * * **
88792429 GATTGACCATAAGGATCAGCATTTGGTTGTGTT
1 GGTTGGCCATATGGATTAGCACTTGGCTGCGCA
* *
88792462 GGCTGGCCATAGGGATTAGCAC-T---T--G-A
1 GGTTGGCCATATGGATTAGCACTTGGCTGCGCA
* * * *
88792488 --CTGGCCATATGGGTTTGCAC-TGGGTGGCGCA
1 GGTTGGCCATATGGATTAGCACTTGGCT-GCGCA
** *
88792519 GGCAGGCCATA-GAGATTAGCACTTGGCTGC-CC
1 GGTTGGCCATATG-GATTAGCACTTGGCTGCGCA
* ** * * *
88792551 GTTTTGGCTGTATGGGTTAGCACTGGGCTGCACA
1 G-GTTGGCCATATGGATTAGCACTTGGCTGCGCA
* * *
88792585 GGCTGGCCATAGGGATTAGCACTTGAG-TGCCCA
1 GGTTGGCCATATGGATTAGCACTTG-GCTGCGCA
** * * * *
88792618 TTTTGGCCATATGGGTTAGTACTGGGCTGCACA
1 GGTTGGCCATATGGATTAGCACTTGGCTGCGCA
* * * *
88792651 GGCTGGCCATAGGGATTAGCACTTGGTTGCCCA
1 GGTTGGCCATATGGATTAGCACTTGGCTGCGCA
** *
88792684 TTTTGGCCATATGGATTAGCA-TTGGGCTGCTCA
1 GGTTGGCCATATGGATTAGCACTT-GGCTGCGCA
* * * *
88792717 GGCTGGCCATAGGGATTAGCACTTGGTTGCCCA
1 GGTTGGCCATATGGATTAGCACTTGGCTGCGCA
** * *
88792750 TTTTGGCCATATGGATTAGCACTGGGCTGAGCA
1 GGTTGGCCATATGGATTAGCACTTGGCTGCGCA
* * * *
88792783 AGCTGGCCATATGGATTCGCACTTGGCTGCGCG
1 GGTTGGCCATATGGATTAGCACTTGGCTGCGCA
88792816 GGTTGG
1 GGTTGG
88792822 TACATATTAG
Statistics
Matches: 454, Mismatches: 114, Indels: 46
0.74 0.19 0.07
Matches are distributed among these distances:
24 18 0.04
27 2 0.00
29 1 0.00
30 1 0.00
31 1 0.00
32 12 0.03
33 404 0.89
34 15 0.03
ACGTcount: A:0.19, C:0.18, G:0.33, T:0.30
Consensus pattern (33 bp):
GGTTGGCCATATGGATTAGCACTTGGCTGCGCA
Found at i:88792602 original size:66 final size:66
Alignment explanation
Indices: 88792489--88792812 Score: 447
Period size: 66 Copynumber: 4.9 Consensus size: 66
88792479 AGCACTTGAC
* * * * *
88792489 TGGCCATATGGGTTTGCACTGGG-TGGCGCAGGCAGGCCATAGAGATTAGCACTTGGCTGCCCGT
1 TGGCCATATGGGTTAGCACTGGGCT-GCACAGGCTGGCCATAGGGATTAGCACTTGGCTGCCCAT
88792553 TT
65 TT
**
88792555 TGGCTGTATGGGTTAGCACTGGGCTGCACAGGCTGGCCATAGGGATTAGCACTTGAG-TGCCCAT
1 TGGCCATATGGGTTAGCACTGGGCTGCACAGGCTGGCCATAGGGATTAGCACTTG-GCTGCCCAT
88792619 TT
65 TT
* *
88792621 TGGCCATATGGGTTAGTACTGGGCTGCACAGGCTGGCCATAGGGATTAGCACTTGGTTGCCCATT
1 TGGCCATATGGGTTAGCACTGGGCTGCACAGGCTGGCCATAGGGATTAGCACTTGGCTGCCCATT
88792686 T
66 T
* * * *
88792687 TGGCCATATGGATTAGCATTGGGCTGCTCAGGCTGGCCATAGGGATTAGCACTTGGTTGCCCATT
1 TGGCCATATGGGTTAGCACTGGGCTGCACAGGCTGGCCATAGGGATTAGCACTTGGCTGCCCATT
88792752 T
66 T
* * * *
88792753 TGGCCATATGGATTAGCACTGGGCTG-AGCAAGCTGGCCATATGGATTCGCACTTGGCTGC
1 TGGCCATATGGGTTAGCACTGGGCTGCA-CAGGCTGGCCATAGGGATTAGCACTTGGCTGC
88792813 GCGGGTTGGT
Statistics
Matches: 234, Mismatches: 20, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
65 1 0.00
66 231 0.99
67 2 0.01
ACGTcount: A:0.18, C:0.22, G:0.32, T:0.27
Consensus pattern (66 bp):
TGGCCATATGGGTTAGCACTGGGCTGCACAGGCTGGCCATAGGGATTAGCACTTGGCTGCCCATT
T
Found at i:88798982 original size:2 final size:2
Alignment explanation
Indices: 88798975--88799018 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
88798965 GAAAAATGAA
* *
88798975 AG AG AG AG AG AG AG AG AG AG AG AG AG AC AG AG AG AT AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
88799017 AG
1 AG
88799019 GAGGAGTGGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.02, G:0.45, T:0.02
Consensus pattern (2 bp):
AG
Found at i:88807053 original size:59 final size:59
Alignment explanation
Indices: 88806981--88807099 Score: 238
Period size: 59 Copynumber: 2.0 Consensus size: 59
88806971 GCCTAAAAAG
88806981 AAAATGTAAAGTTTAACTATTTTACACTCACCCATTGCAACATTCACTCTTCCCTGAAT
1 AAAATGTAAAGTTTAACTATTTTACACTCACCCATTGCAACATTCACTCTTCCCTGAAT
88807040 AAAATGTAAAGTTTAACTATTTTACACTCACCCATTGCAACATTCACTCTTCCCTGAAT
1 AAAATGTAAAGTTTAACTATTTTACACTCACCCATTGCAACATTCACTCTTCCCTGAAT
88807099 A
1 A
88807100 GTTTTATCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.34, C:0.25, G:0.07, T:0.34
Consensus pattern (59 bp):
AAAATGTAAAGTTTAACTATTTTACACTCACCCATTGCAACATTCACTCTTCCCTGAAT
Found at i:88812240 original size:26 final size:26
Alignment explanation
Indices: 88812201--88812256 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
88812191 AAAAGATTGG
*
88812201 TTAA-TAAAATAATTCATGGATTACA
1 TTAATTAAAATAATTAATGGATTACA
88812226 TTAATTAAAATAATTAATGGATTACA
1 TTAATTAAAATAATTAATGGATTACA
88812252 TTAAT
1 TTAAT
88812257 ATACTTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 4 0.14
26 25 0.86
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.39
Consensus pattern (26 bp):
TTAATTAAAATAATTAATGGATTACA
Found at i:88812588 original size:31 final size:31
Alignment explanation
Indices: 88812550--88812613 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
88812540 CAACTAATTG
88812550 AACTGATAGTACATCGGGTTGGACCCAAGAA
1 AACTGATAGTACATCGGGTTGGACCCAAGAA
*
88812581 AACTGATAGTATATCGGGTTGGACCCAAGAA
1 AACTGATAGTACATCGGGTTGGACCCAAGAA
88812612 AA
1 AA
88812614 ATAGATCCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (31 bp):
AACTGATAGTACATCGGGTTGGACCCAAGAA
Found at i:88820467 original size:31 final size:31
Alignment explanation
Indices: 88820431--88820493 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
88820421 AAAGATTAAA
88820431 ATTATTAGTAATTATCGTCTTTCTATTATTT
1 ATTATTAGTAATTATCGTCTTTCTATTATTT
* * *
88820462 ATTATTAGTAATTATTGTTTTTTTATTATTT
1 ATTATTAGTAATTATCGTCTTTCTATTATTT
88820493 A
1 A
88820494 ACTGATAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.05, G:0.06, T:0.62
Consensus pattern (31 bp):
ATTATTAGTAATTATCGTCTTTCTATTATTT
Found at i:88821178 original size:15 final size:17
Alignment explanation
Indices: 88821147--88821178 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
88821137 ATAATTATAT
88821147 AAATTATAATCATTTTA
1 AAATTATAATCATTTTA
88821164 AAATT-TAAT-ATTTTA
1 AAATTATAATCATTTTA
88821179 TTCATGCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
AAATTATAATCATTTTA
Found at i:88822358 original size:20 final size:18
Alignment explanation
Indices: 88822333--88822372 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
88822323 AGAATAGTCT
88822333 AATAAAATGATAAGAATAAA
1 AATAAAATGA-AAGAA-AAA
*
88822353 AATAAAATTAAAGAAAAA
1 AATAAAATGAAAGAAAAA
88822371 AA
1 AA
88822373 GATGCAACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 5 0.26
20 9 0.47
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.17
Consensus pattern (18 bp):
AATAAAATGAAAGAAAAA
Found at i:88822372 original size:19 final size:20
Alignment explanation
Indices: 88822333--88822372 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
88822323 AGAATAGTCT
*
88822333 AATAAAATGATAAGAATAAA
1 AATAAAATGATAAGAAAAAA
*
88822353 AATAAAATTA-AAGAAAAAA
1 AATAAAATGATAAGAAAAAA
88822372 A
1 A
88822373 GATGCAACCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.17
Consensus pattern (20 bp):
AATAAAATGATAAGAAAAAA
Found at i:88824959 original size:11 final size:11
Alignment explanation
Indices: 88824945--88824985 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
88824935 TATTTTCTCC
88824945 CTATTTTGCTA
1 CTATTTTGCTA
*
88824956 CTATTTTACTA
1 CTATTTTGCTA
* *
88824967 TTATGTTGCTA
1 CTATTTTGCTA
88824978 CTATTTTG
1 CTATTTTG
88824986 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:88831441 original size:18 final size:18
Alignment explanation
Indices: 88831419--88831493 Score: 105
Period size: 18 Copynumber: 4.2 Consensus size: 18
88831409 CCCAACTATT
* *
88831419 GTATACGTGAATAGTACT
1 GTATACGTAAATAGTACC
88831437 GTATACGTAAATAGTACC
1 GTATACGTAAATAGTACC
* * *
88831455 ATATACGTGAATAGTGCC
1 GTATACGTAAATAGTACC
88831473 GTATACGTAAATAGTACC
1 GTATACGTAAATAGTACC
88831491 GTA
1 GTA
88831494 AATGGTCGTA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 49 1.00
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (18 bp):
GTATACGTAAATAGTACC
Found at i:88831467 original size:36 final size:36
Alignment explanation
Indices: 88831420--88831490 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
88831410 CCAACTATTG
*
88831420 TATACGTGAATAGTACTGTATACGTAAATAGTACCA
1 TATACGTGAATAGTACCGTATACGTAAATAGTACCA
*
88831456 TATACGTGAATAGTGCCGTATACGTAAATAGTACC
1 TATACGTGAATAGTACCGTATACGTAAATAGTACC
88831491 GTAAATGGTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (36 bp):
TATACGTGAATAGTACCGTATACGTAAATAGTACCA
Found at i:88836029 original size:51 final size:51
Alignment explanation
Indices: 88835948--88836047 Score: 146
Period size: 51 Copynumber: 2.0 Consensus size: 51
88835938 ATATATGTGG
* *
88835948 CATCTGAGCTCGTTGAGTGGTCCGAGTTCATAATGGATGCGATACATGTAA
1 CATCCGAGCTCGTTGAGAGGTCCGAGTTCATAATGGATGCGATACATGTAA
* * * *
88835999 CATCCGAGCTTGTTGAGAGGTCCGAGTTCATTATGGATGTGTTACATGT
1 CATCCGAGCTCGTTGAGAGGTCCGAGTTCATAATGGATGCGATACATGT
88836048 TATAAGGTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (51 bp):
CATCCGAGCTCGTTGAGAGGTCCGAGTTCATAATGGATGCGATACATGTAA
Found at i:88839661 original size:15 final size:15
Alignment explanation
Indices: 88839634--88839676 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
88839624 TTCATTATGA
*
88839634 TATTGTATCTTGGATT
1 TATT-TATCTTGGACT
*
88839650 TATTTGTCTTGGACT
1 TATTTATCTTGGACT
*
88839665 TCTTTATCTTGG
1 TATTTATCTTGG
88839677 TTTTCATGTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.14, C:0.12, G:0.19, T:0.56
Consensus pattern (15 bp):
TATTTATCTTGGACT
Found at i:88845424 original size:43 final size:42
Alignment explanation
Indices: 88845356--88845461 Score: 140
Period size: 43 Copynumber: 2.5 Consensus size: 42
88845346 GAAATTCGAG
* *
88845356 CTCGTTGAGCGGTCCGAGTTGGTGATATATGTGAGAATCCGAA
1 CTCGTTGAGTGGTCCGAGTTCGTGATATATGTG-GAATCCGAA
* * * * *
88845399 CTTGTTGAGTGGTCCAAGTTCGTGATATATGTGGCATCTGAG
1 CTCGTTGAGTGGTCCGAGTTCGTGATATATGTGGAATCCGAA
88845441 CTCGTTGAGTGGTCCGAGTTC
1 CTCGTTGAGTGGTCCGAGTTC
88845462 ATTATGCATG
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 25 0.46
43 29 0.54
ACGTcount: A:0.19, C:0.17, G:0.32, T:0.32
Consensus pattern (42 bp):
CTCGTTGAGTGGTCCGAGTTCGTGATATATGTGGAATCCGAA
Found at i:88845491 original size:43 final size:43
Alignment explanation
Indices: 88845432--88845515 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
88845422 GATATATGTG
*
88845432 GCATCTGAGCTCGTTGAGTGGTCCGAGTTCATTATGCATGCAA
1 GCATCTGAGCTCGTTGAGTGGTCCGAGTTCATAATGCATGCAA
* *
88845475 GCATCTGAGCTCGTTGAGTGGTCTGAGTTCATAATGGATGC
1 GCATCTGAGCTCGTTGAGTGGTCCGAGTTCATAATGCATGC
88845516 GATACATGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (43 bp):
GCATCTGAGCTCGTTGAGTGGTCCGAGTTCATAATGCATGCAA
Found at i:88845541 original size:51 final size:51
Alignment explanation
Indices: 88845476--88845575 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
88845466 TGCATGCAAG
* *
88845476 CATCTGAGCTCGTTGAGTGG-TCTGAGTTCATAATGGATGCGATACATGTAA
1 CATCCGAGCTCGTTGAGAGGTTC-GAGTTCATAATGGATGCGATACATGTAA
* * * *
88845527 CATCCGAGCTCGTTGAGAGGTTCGAGTTTATTATGGATGTGTTACATGT
1 CATCCGAGCTCGTTGAGAGGTTCGAGTTCATAATGGATGCGATACATGT
88845576 TATAAGGTAG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 40 0.95
52 2 0.05
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (51 bp):
CATCCGAGCTCGTTGAGAGGTTCGAGTTCATAATGGATGCGATACATGTAA
Found at i:88847815 original size:2 final size:2
Alignment explanation
Indices: 88847810--88847840 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
88847800 TATACGTGAA
88847810 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
88847841 AATAGTAGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:88848015 original size:15 final size:16
Alignment explanation
Indices: 88847984--88848016 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
88847974 GTATATATAC
88847984 ATGTATATAAAAATAA
1 ATGTATATAAAAATAA
*
88848000 ATGTAT-TAACAATAA
1 ATGTATATAAAAATAA
88848015 AT
1 AT
88848017 ATAATAGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (16 bp):
ATGTATATAAAAATAA
Found at i:88849264 original size:26 final size:24
Alignment explanation
Indices: 88849215--88849271 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
88849205 CATTTGTATC
*
88849215 AAGGGGAGAGAAAAAAAGGGAGAG
1 AAGGGGAGAGAAAAAAAGAGAGAG
* *
88849239 AAGGGGAGAGGGAAGAAA-AGAGAG
1 AAGGGGAGA-GAAAAAAAGAGAGAG
88849263 -AGGGGAGAG
1 AAGGGGAGAG
88849272 GAGGGAGCTC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 1 0.03
23 8 0.28
24 14 0.48
25 6 0.21
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (24 bp):
AAGGGGAGAGAAAAAAAGAGAGAG
Found at i:88854991 original size:15 final size:14
Alignment explanation
Indices: 88854964--88854990 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
88854954 GAGTATAGTA
88854964 AAATATTAAAAAAT
1 AAATATTAAAAAAT
88854978 AAATATTAAAAAA
1 AAATATTAAAAAA
88854991 AAACTTCTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAATATTAAAAAAT
Found at i:88857022 original size:14 final size:14
Alignment explanation
Indices: 88857003--88857032 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
88856993 TTTTTTTATT
88857003 TATAAAAATATACC
1 TATAAAAATATACC
88857017 TATAAAAATATACC
1 TATAAAAATATACC
88857031 TA
1 TA
88857033 AACTATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (14 bp):
TATAAAAATATACC
Found at i:88860888 original size:42 final size:42
Alignment explanation
Indices: 88860819--88860902 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
88860809 AATGAAGGAA
*
88860819 GAAAACTATCATCTTAGTTTCTTCTTCATCTAATAGTCGATT
1 GAAAACTATCATCTTAGTTTCTTCTTCATCTAATAATCGATT
* * * *
88860861 GAAAGCTATTATCTTTGTTTTTTCTTCATCTAATAATCGATT
1 GAAAACTATCATCTTAGTTTCTTCTTCATCTAATAATCGATT
88860903 AGCCATTGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.27, C:0.17, G:0.10, T:0.46
Consensus pattern (42 bp):
GAAAACTATCATCTTAGTTTCTTCTTCATCTAATAATCGATT
Found at i:88870447 original size:24 final size:24
Alignment explanation
Indices: 88870420--88870470 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
88870410 CATGGAAGAG
88870420 AAGTTAAAATTTTGTTTAAGGATT
1 AAGTTAAAATTTTGTTTAAGGATT
88870444 AAGTTAAAATTTTGTTTAAGGATT
1 AAGTTAAAATTTTGTTTAAGGATT
88870468 AAG
1 AAG
88870471 ACACTTTACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (24 bp):
AAGTTAAAATTTTGTTTAAGGATT
Found at i:88872588 original size:31 final size:31
Alignment explanation
Indices: 88872552--88872610 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
88872542 AAATTCACAT
* * *
88872552 TTTTGGTAAAATGGCCATTTTGCCCCTAGAC
1 TTTTGGCAAAATGACCATTTTACCCCTAGAC
88872583 TTTTGGCAAAATGACCATTTTACCCCTA
1 TTTTGGCAAAATGACCATTTTACCCCTA
88872611 TGCTCGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (31 bp):
TTTTGGCAAAATGACCATTTTACCCCTAGAC
Found at i:88880582 original size:40 final size:41
Alignment explanation
Indices: 88880491--88880586 Score: 101
Period size: 40 Copynumber: 2.4 Consensus size: 41
88880481 GACTATGTTC
* *
88880491 GGCACTAAGTGTGC-TGTTCGAAATAGCTTCGGCTACAAAT
1 GGCACTAAGTGTGCGAGTTCGAAATAGCTTCAGCTACAAAT
* * *
88880531 GACAC-AGAGTGTGCGAGTT-GGAATAGCTTCAGCTATAACA-
1 GGCACTA-AGTGTGCGAGTTCGAAATAGCTTCAGCTACAA-AT
88880571 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
88880587 TACCGAGATA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
39 1 0.02
40 40 0.87
41 5 0.11
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (41 bp):
GGCACTAAGTGTGCGAGTTCGAAATAGCTTCAGCTACAAAT
Found at i:88886288 original size:13 final size:13
Alignment explanation
Indices: 88886270--88886299 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
88886260 AAACTAGATT
*
88886270 TTAACTAAGTAAA
1 TTAACTAAGAAAA
88886283 TTAACTAAGAAAA
1 TTAACTAAGAAAA
88886296 TTAA
1 TTAA
88886300 AAAGATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (13 bp):
TTAACTAAGAAAA
Found at i:88890891 original size:46 final size:46
Alignment explanation
Indices: 88890841--88891016 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
88890831 TGGTTGAGCA
88890841 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATG
* * * *
88890887 TCCGAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAA-T--G
* *
88890932 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATG
* *
88890980 CCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGG
88891017 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 63 0.58
47 28 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATG
Found at i:88890997 original size:93 final size:93
Alignment explanation
Indices: 88890838--88891008 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
88890828 GGATGGTTGA
* * *
88890838 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
88890903 TGAGTTCGAGTTCGTGAAATGTAACTAG
66 TGAGTTCGAGTTCGTGAAATGTAACTAG
*
88890931 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
88890996 TGAGTTCGAGTTC
66 TGAGTTCGAGTTC
88891009 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTTCGAGTTCGTGAAATGTAACTAG
Found at i:88897577 original size:15 final size:16
Alignment explanation
Indices: 88897550--88897580 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
88897540 TTAAGTTAAA
88897550 GAAAGTAAATGAAATG
1 GAAAGTAAATGAAATG
88897566 GAAAGT-AATGAAATG
1 GAAAGTAAATGAAATG
88897581 CAAATGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.55, C:0.00, G:0.26, T:0.19
Consensus pattern (16 bp):
GAAAGTAAATGAAATG
Found at i:88907579 original size:18 final size:18
Alignment explanation
Indices: 88907543--88907579 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
88907533 TTCTTGTCGA
* *
88907543 AAAATAATTAATTTTTAC
1 AAAATAATTAAATTATAC
88907561 AAAATAATTAAATTATAC
1 AAAATAATTAAATTATAC
88907579 A
1 A
88907580 TAAAATATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAATAATTAAATTATAC
Found at i:88917214 original size:40 final size:40
Alignment explanation
Indices: 88917150--88917228 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
88917140 ATACAGTACC
* *
88917150 ACTTGGTGTATAGGGTTGGATGGGTTGATTTTATCCCCAT
1 ACTTGGTGTATAGGGCTGGATGGGTCGATTTTATCCCCAT
* *
88917190 ACTTGGTGTGTAGGGCTGGGTGGGTCGATTTTATCCCCA
1 ACTTGGTGTATAGGGCTGGATGGGTCGATTTTATCCCCA
88917229 CATAGTGTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.15, C:0.15, G:0.33, T:0.37
Consensus pattern (40 bp):
ACTTGGTGTATAGGGCTGGATGGGTCGATTTTATCCCCAT
Found at i:88932941 original size:40 final size:40
Alignment explanation
Indices: 88932833--88932942 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
88932823 ATTGAATGAT
* * * * *
88932833 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
88932873 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
88932913 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
88932943 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:88932957 original size:40 final size:39
Alignment explanation
Indices: 88932833--88932982 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 39
88932823 ATTGAATGAT
* * * * * * *
88932833 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
*
88932873 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
* *
88932913 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACAC
* *
88932953 ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC
88932983 GGGTTACCAT
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 86 0.93
41 1 0.01
43 5 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:88940974 original size:40 final size:40
Alignment explanation
Indices: 88940866--88940975 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
88940856 ATTGAATGAT
* * * * *
88940866 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
88940906 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
88940946 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
88940976 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:88940990 original size:40 final size:39
Alignment explanation
Indices: 88940866--88941015 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 39
88940856 ATTGAATGAT
* * * * * * *
88940866 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
*
88940906 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
* *
88940946 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACAC
* *
88940986 ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC
88941016 GGGTTACCAT
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 86 0.93
41 1 0.01
43 5 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:88947492 original size:27 final size:27
Alignment explanation
Indices: 88947454--88947511 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
88947444 TATCTGAGTG
*
88947454 GGCTAAGATTCACACTGATTGTGTAAA
1 GGCTAAGATTCACACCGATTGTGTAAA
*
88947481 GGCTAAGGTTCACACCGATTGTGTAAA
1 GGCTAAGATTCACACCGATTGTGTAAA
88947508 GGCT
1 GGCT
88947512 TAGGCTTAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (27 bp):
GGCTAAGATTCACACCGATTGTGTAAA
Found at i:88948562 original size:24 final size:24
Alignment explanation
Indices: 88948535--88948586 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
88948525 ATTTTAGGTG
*
88948535 CACACAACTTGAGACACGGGCTT-T
1 CACACAACCTGAGACACGGG-TTGT
* *
88948559 CACATAGCCTGAGACACGGGTTGT
1 CACACAACCTGAGACACGGGTTGT
88948583 CACA
1 CACA
88948587 TGGCGTGTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (24 bp):
CACACAACCTGAGACACGGGTTGT
Found at i:88950061 original size:46 final size:46
Alignment explanation
Indices: 88950011--88950186 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
88950001 TGTTTGAGCA
* * *
88950011 TCCGAACTCGTTGAGCTGAGTTCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
88950057 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA---A-GAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--ATG
* * *
88950102 CATCCGAGCTCGTTGAGTTGAGTCTGAGTTCAATTATGGATGCAAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
88950150 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
88950187 GCGGGTTAAA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 1 0.01
43 6 0.06
45 2 0.02
46 61 0.56
47 28 0.26
48 2 0.02
50 7 0.06
51 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:88950167 original size:93 final size:93
Alignment explanation
Indices: 88950008--88950179 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
88949998 GGATGTTTGA
* * *
88950008 GCATCCGAACTCGTTGAGCTGAGTTCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGCTGAGTTCGAGTTCAATTATGGATGCAAATGCCCGAACTCGTTGAGT
88950073 TGAGTCCGAGTTCAAGAGATGTAACTAG
66 TGAGTCCGAGTTCAAGAGATGTAACTAG
* * * *
88950101 GCATCCGAGCTCGTTGAGTTGAG-TCTGAGTTCAATTATGGATGCAAATGCCCGAGCTTGTTGAG
1 GCATCCGAACTCGTTGAGCTGAGTTC-GAGTTCAATTATGGATGCAAATGCCCGAACTCGTTGAG
88950165 TTGAGTCCGAGTTCA
65 TTGAGTCCGAGTTCA
88950180 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGCTGAGTTCGAGTTCAATTATGGATGCAAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCAAGAGATGTAACTAG
Found at i:88954738 original size:21 final size:21
Alignment explanation
Indices: 88954714--88954781 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
88954704 ACTCATATAA
*
88954714 GTTTCAGTTTAACCCTTATGG
1 GTTTCAGTTCAACCCTTATGG
* * *
88954735 GTTTCCGTTCAGCTCTTATGAG
1 GTTTCAGTTCAACCCTTATG-G
* *
88954757 CTTCCA-TTCAACCCTTATGG
1 GTTTCAGTTCAACCCTTATGG
88954777 GTTTC
1 GTTTC
88954782 CGTTTAGCAC
Statistics
Matches: 35, Mismatches: 11, Indels: 3
0.71 0.22 0.06
Matches are distributed among these distances:
20 4 0.11
21 27 0.77
22 4 0.11
ACGTcount: A:0.16, C:0.25, G:0.18, T:0.41
Consensus pattern (21 bp):
GTTTCAGTTCAACCCTTATGG
Found at i:88954782 original size:21 final size:21
Alignment explanation
Indices: 88954724--88954782 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
88954714 GTTTCAGTTT
*
88954724 AACCCTTATGGGTTTCCGTTC
1 AACCCTTATGGGTTTCCATTC
* * * *
88954745 AGCTCTTATGAGCTTCCATTC
1 AACCCTTATGGGTTTCCATTC
88954766 AACCCTTATGGGTTTCC
1 AACCCTTATGGGTTTCC
88954783 GTTTAGCACT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.17, C:0.29, G:0.17, T:0.37
Consensus pattern (21 bp):
AACCCTTATGGGTTTCCATTC
Found at i:88954811 original size:42 final size:42
Alignment explanation
Indices: 88954724--88954811 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 42
88954714 GTTTCAGTTT
* *
88954724 AACCCTTATGGGTTTCCGTTCAGCTCTTATGAGCTTCCATTC
1 AACCCTTATGGGTTTCCGTTCAGCACTTATGAGCTTCCATGC
* * * **
88954766 AACCCTTATGGGTTTCCGTTTAGCACTTGTGTGCTTCTGTGC
1 AACCCTTATGGGTTTCCGTTCAGCACTTATGAGCTTCCATGC
88954808 AACC
1 AACC
88954812 TTCGAGCTTC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.16, C:0.27, G:0.19, T:0.38
Consensus pattern (42 bp):
AACCCTTATGGGTTTCCGTTCAGCACTTATGAGCTTCCATGC
Found at i:88957062 original size:64 final size:64
Alignment explanation
Indices: 88956982--88957109 Score: 229
Period size: 64 Copynumber: 2.0 Consensus size: 64
88956972 CATACAAGGG
* *
88956982 TCATACGCCTGCGTGAACAGGCCGTGTTCCTCACACGACTAATAGACACGCCCGTGTTTTAGGC
1 TCATACGCCCGCGTGAACAGGCCATGTTCCTCACACGACTAATAGACACGCCCGTGTTTTAGGC
*
88957046 TCATACGCCCGCGTGAACAGGCCATGTTCCTCACACGACTAATAGACACGTCCGTGTTTTAGGC
1 TCATACGCCCGCGTGAACAGGCCATGTTCCTCACACGACTAATAGACACGCCCGTGTTTTAGGC
88957110 CGTGTGGAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (64 bp):
TCATACGCCCGCGTGAACAGGCCATGTTCCTCACACGACTAATAGACACGCCCGTGTTTTAGGC
Found at i:88958401 original size:51 final size:51
Alignment explanation
Indices: 88958325--88958426 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
88958315 GTTAATTTGT
88958325 ATATTTGTGGTTACTAGATTGATGGATAGTATATCGATTGTGAAAATGACA
1 ATATTTGTGGTTACTAGATTGATGGATAGTATATCGATTGTGAAAATGACA
88958376 ATATTTGTGGTTACTAGATTGATGGATAGTATATCGATTGTGAAAATGACA
1 ATATTTGTGGTTACTAGATTGATGGATAGTATATCGATTGTGAAAATGACA
88958427 CTTAGTGTGC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (51 bp):
ATATTTGTGGTTACTAGATTGATGGATAGTATATCGATTGTGAAAATGACA
Found at i:88958499 original size:57 final size:56
Alignment explanation
Indices: 88958420--88958551 Score: 185
Period size: 57 Copynumber: 2.3 Consensus size: 56
88958410 CGATTGTGAA
* * *
88958420 AATGACACTTAGTGTGCGAATTATTGAGGATGGCATTTAGTGTGCGAAACATCCAG
1 AATGACACTTAGTGTGCAAATTATTGAAGATGGCACTTAGTGTGCGAAACATCCAG
* *
88958476 AAAT-AGCACTTAGTGTGCAAATTATTGAAGATGGCACTTAGTGTGCGAGACATCGAG
1 -AATGA-CACTTAGTGTGCAAATTATTGAAGATGGCACTTAGTGTGCGAAACATCCAG
*
88958533 GATGACACTTAGTGTGCAA
1 AATGACACTTAGTGTGCAA
88958552 TGCATCCGTG
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
56 17 0.25
57 50 0.75
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (56 bp):
AATGACACTTAGTGTGCAAATTATTGAAGATGGCACTTAGTGTGCGAAACATCCAG
Found at i:88958536 original size:28 final size:29
Alignment explanation
Indices: 88958425--88958549 Score: 114
Period size: 28 Copynumber: 4.4 Consensus size: 29
88958415 GTGAAAATGA
* *
88958425 CACTTAGTGTGCG-AATTATTGAGGATGG
1 CACTTAGTGTGCGAAATCATCGAGGATGG
* * * *
88958453 CATTTAGTGTGCGAAA-CATCCAGAAATAG
1 CACTTAGTGTGCGAAATCATCGAG-GATGG
* * *
88958482 CACTTAGTGTGC-AAATTATTGAAGATGG
1 CACTTAGTGTGCGAAATCATCGAGGATGG
* *
88958510 CACTTAGTGTGCGAGA-CATCGAGGATGA
1 CACTTAGTGTGCGAAATCATCGAGGATGG
88958538 CACTTAGTGTGC
1 CACTTAGTGTGC
88958550 AATGCATCCG
Statistics
Matches: 75, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
28 54 0.72
29 21 0.28
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (29 bp):
CACTTAGTGTGCGAAATCATCGAGGATGG
Found at i:88972659 original size:45 final size:44
Alignment explanation
Indices: 88972595--88972685 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 44
88972585 TGAAAAATGA
*
88972595 TATTCTTTTTGAAGCTCACAGTAGTATATATTCCATTCATCCGGG
1 TATTCTTTCTGAAGCTCACAGTAGTATATATTCCATT-ATCCGGG
*
88972640 TATTCTTTCTGAAGCTCACAGTAGTATGTATTCCATTATCCGGG
1 TATTCTTTCTGAAGCTCACAGTAGTATATATTCCATTATCCGGG
88972684 TA
1 TA
88972686 GTACGAAGAT
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
44 9 0.20
45 35 0.80
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (44 bp):
TATTCTTTCTGAAGCTCACAGTAGTATATATTCCATTATCCGGG
Found at i:88975384 original size:43 final size:43
Alignment explanation
Indices: 88975287--88975439 Score: 137
Period size: 43 Copynumber: 3.6 Consensus size: 43
88975277 AAATGGAAAA
* ** * * *
88975287 ACACCACTATAGAACATGAAATTTAGTGGTGTTTTTCCCATAG
1 ACACCGCTATAGAACATGACCTTTAGCGGTGCTTTTCCCACAG
** *
88975330 ACACCATTATAGAACATGACCTTTAGCGGTGCTTTTCCCACAA
1 ACACCGCTATAGAACATGACCTTTAGCGGTGCTTTTCCCACAG
* * ** *
88975373 ACACTGCTATAGGATGTGACCTTTAGCGGCGC-TTTCCCTACAG
1 ACACCGCTATAGAACATGACCTTTAGCGGTGCTTTTCCC-ACAG
* * *
88975416 ACGCCGCTAAAGATCATGACCTTT
1 ACACCGCTATAGAACATGACCTTT
88975440 GGAGCGCTTT
Statistics
Matches: 87, Mismatches: 22, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
42 6 0.07
43 81 0.93
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (43 bp):
ACACCGCTATAGAACATGACCTTTAGCGGTGCTTTTCCCACAG
Found at i:88989611 original size:26 final size:26
Alignment explanation
Indices: 88989553--88989621 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 26
88989543 GACTCACCAT
* *
88989553 AGCTCGTATGAGCTTACCGATATATT
1 AGCTCGTAAGAGCTTACCGATATATC
* * *
88989579 AGTTCGTACGAGCTTACC-AGTGTATC
1 AGCTCGTAAGAGCTTACCGA-TATATC
88989605 AGCTCGTAAGAGCTTAC
1 AGCTCGTAAGAGCTTAC
88989622 TGTTTTCAGC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
25 1 0.03
26 35 0.97
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (26 bp):
AGCTCGTAAGAGCTTACCGATATATC
Found at i:88997248 original size:46 final size:46
Alignment explanation
Indices: 88997198--88997321 Score: 112
Period size: 46 Copynumber: 2.7 Consensus size: 46
88997188 TATCGATATA
*** *
88997198 TCAGCTCGTAAGAGCTCACTGTTTTCAGCTTTTTGGAGCTTACTG-C
1 TCAGCTCGTAAGAGCT-ACTGTTTTCAGCTCAATAGAGCTTACTGTC
* *
88997244 TCAGCTCG-ATAGAGCATACT-ATTTCAGCTCAATAGAGCTTACTGTT
1 TCAGCTCGTA-AGAGC-TACTGTTTTCAGCTCAATAGAGCTTACTGTC
88997290 TCAGCTCAGT-AGAGCTTACTGTTTATCAGCTC
1 TCAGCTC-GTAAGAGC-TACTGTTT-TCAGCTC
88997322 GGGAGGAGCT
Statistics
Matches: 63, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
45 20 0.32
46 32 0.51
47 4 0.06
48 7 0.11
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (46 bp):
TCAGCTCGTAAGAGCTACTGTTTTCAGCTCAATAGAGCTTACTGTC
Found at i:88997310 original size:23 final size:22
Alignment explanation
Indices: 88997198--88997322 Score: 99
Period size: 23 Copynumber: 5.4 Consensus size: 22
88997188 TATCGATATA
*
88997198 TCAGCTCGTAAGAGCTCACTGTTT
1 TCAGCTCGT-AGAGCTTACTG-TT
** * *
88997222 TCAGCTTTTTGGAGCTTACTG-C
1 TCAGC-TCGTAGAGCTTACTGTT
* *
88997244 TCAGCTCGATAGAGCATACTATT
1 TCAGCTCG-TAGAGCTTACTGTT
*
88997267 TCAGCTCAATAGAGCTTACTGTT
1 TCAGCTC-GTAGAGCTTACTGTT
88997290 TCAGCTCAGTAGAGCTTACTGTTT
1 TCAGCTC-GTAGAGCTTACTG-TT
88997314 ATCAGCTCG
1 -TCAGCTCG
88997323 GGAGGAGCTT
Statistics
Matches: 80, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
21 1 0.01
22 14 0.17
23 39 0.49
24 17 0.21
25 9 0.11
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.34
Consensus pattern (22 bp):
TCAGCTCGTAGAGCTTACTGTT
Found at i:88999376 original size:22 final size:21
Alignment explanation
Indices: 88999326--88999376 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
88999316 CCTCTAACAT
** *
88999326 GGGCGTGTCCCAGGGTCGCAC
1 GGGCGTGTCCCAGGACCACAC
*
88999347 GGGTGTGTCCCTAGGACCACAC
1 GGGCGTGTCCC-AGGACCACAC
88999369 GGGCGTGT
1 GGGCGTGT
88999377 GAGCCCTGCA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.12, C:0.29, G:0.41, T:0.18
Consensus pattern (21 bp):
GGGCGTGTCCCAGGACCACAC
Found at i:89001378 original size:40 final size:40
Alignment explanation
Indices: 89001295--89001502 Score: 184
Period size: 40 Copynumber: 5.2 Consensus size: 40
89001285 CGGGATTTAA
* * * * * *
89001295 CCGGATATAGCGACTCGCTCGATTGTCTTCGGGACCTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* ** * * *
89001335 CCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAAC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
89001375 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*
89001415 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*** * * *
89001455 CCGGATATAATTACTAGCA-TAATTGCCTTCGGGACTTAGC
1 CCGGATATAGCAACTCGCACGAA-TGCCTTCGGGTCTTAGC
89001495 CCGGATAT
1 CCGGATAT
89001503 CATTCCAATG
Statistics
Matches: 139, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 2 0.01
40 137 0.99
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:89001415 original size:80 final size:80
Alignment explanation
Indices: 89001321--89001502 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
89001311 GCTCGATTGT
* * *** * * * **
89001321 CTTCGGGACCTAGCCCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
*
89001386 AACTTGCACAAATGC
66 AACTAGCACAAATGC
* *
89001401 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
* * *
89001466 TACTAGCATAATTGC
66 AACTAGCACAAATGC
89001481 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
89001503 CATTCCAATG
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
80 85 1.00
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
AACTAGCACAAATGC
Found at i:89009422 original size:40 final size:40
Alignment explanation
Indices: 89009339--89009546 Score: 184
Period size: 40 Copynumber: 5.2 Consensus size: 40
89009329 CGGGATTTAA
* * * * * *
89009339 CCGGATATAGCGACTCGCTCGATTGTCTTCGGGACCTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* ** * * *
89009379 CCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAAC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
89009419 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*
89009459 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*** * * *
89009499 CCGGATATAATTACTAGCA-TAATTGCCTTCGGGACTTAGC
1 CCGGATATAGCAACTCGCACGAA-TGCCTTCGGGTCTTAGC
89009539 CCGGATAT
1 CCGGATAT
89009547 CATTCCAATG
Statistics
Matches: 139, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 2 0.01
40 137 0.99
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:89009459 original size:80 final size:80
Alignment explanation
Indices: 89009365--89009546 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
89009355 GCTCGATTGT
* * *** * * * **
89009365 CTTCGGGACCTAGCCCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
*
89009430 AACTTGCACAAATGC
66 AACTAGCACAAATGC
* *
89009445 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
* * *
89009510 TACTAGCATAATTGC
66 AACTAGCACAAATGC
89009525 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
89009547 CATTCCAATG
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
80 85 1.00
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
AACTAGCACAAATGC
Found at i:89020084 original size:53 final size:53
Alignment explanation
Indices: 89020004--89020105 Score: 154
Period size: 53 Copynumber: 1.9 Consensus size: 53
89019994 CCATGGCAAC
*
89020004 ATGTGATATGTGATTTTCGTATAAGACCATAGT-TGGGCTATGGCATCGGAGAG
1 ATGTGATATGTGATTTTCGTATAAGACCATA-TATGGGATATGGCATCGGAGAG
*
89020057 ATGTGATTATGTGCTTTT-GTATAAGACCATATATGGGATATGGCATCGG
1 ATGTGA-TATGTGATTTTCGTATAAGACCATATATGGGATATGGCATCGG
89020106 TGTGATATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
52 1 0.02
53 34 0.76
54 10 0.22
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.34
Consensus pattern (53 bp):
ATGTGATATGTGATTTTCGTATAAGACCATATATGGGATATGGCATCGGAGAG
Found at i:89020228 original size:49 final size:48
Alignment explanation
Indices: 89020156--89020261 Score: 149
Period size: 49 Copynumber: 2.2 Consensus size: 48
89020146 ACATCAGTGA
* * *
89020156 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATAGCATTGATATGT
1 GATATGTGATTCCTGTAAGACCATAGCTGGGCTATAGCATCGATATAT
* *
89020204 GATATGTGATTTCCTGTAAGACCATAGTTGGGCTATGGCATCGATATAT
1 GATATGTGA-TTCCTGTAAGACCATAGCTGGGCTATAGCATCGATATAT
89020253 GAATATGTG
1 G-ATATGTG
89020262 TAAGGCCATA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
48 9 0.18
49 35 0.69
50 7 0.14
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.34
Consensus pattern (48 bp):
GATATGTGATTCCTGTAAGACCATAGCTGGGCTATAGCATCGATATAT
Found at i:89020264 original size:42 final size:42
Alignment explanation
Indices: 89020218--89020328 Score: 143
Period size: 42 Copynumber: 2.6 Consensus size: 42
89020208 TGTGATTTCC
* *
89020218 TGTAAGACCATAGTTGGGCTATGGCATCGA-TATATGAATATG
1 TGTAAGGCCATAGTTGGGCTATGGCATC-ATTATATGAAGATG
* * *
89020260 TGTAAGGCCATAGCTGGGTTATGGCATCATTATCTGAAGATG
1 TGTAAGGCCATAGTTGGGCTATGGCATCATTATATGAAGATG
**
89020302 TGTAAGGCCATAGTTGAACTATGGCAT
1 TGTAAGGCCATAGTTGGGCTATGGCAT
89020329 AAAGAAAATG
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
41 1 0.02
42 58 0.98
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.31
Consensus pattern (42 bp):
TGTAAGGCCATAGTTGGGCTATGGCATCATTATATGAAGATG
Found at i:89020412 original size:15 final size:15
Alignment explanation
Indices: 89020392--89020425 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
89020382 GGTAAGTGTT
89020392 ATATGGAACTATGTG
1 ATATGGAACTATGTG
89020407 ATATGGAACTATGTG
1 ATATGGAACTATGTG
89020422 ATAT
1 ATAT
89020426 AAGGAAGTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (15 bp):
ATATGGAACTATGTG
Found at i:89038532 original size:25 final size:25
Alignment explanation
Indices: 89038479--89038532 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
89038469 AATTTTATTC
* *
89038479 AATTATCTAATTTTTCAATTTATTG
1 AATTATCTAATTTTTCAATTAATTA
89038504 AATTAT-TAATATTTT-ATATTAATTA
1 AATTATCTAAT-TTTTCA-ATTAATTA
89038529 AATT
1 AATT
89038533 TTTTAGGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.56
Consensus pattern (25 bp):
AATTATCTAATTTTTCAATTAATTA
Found at i:89045163 original size:43 final size:42
Alignment explanation
Indices: 89045098--89045221 Score: 133
Period size: 43 Copynumber: 2.9 Consensus size: 42
89045088 AGCTCATACA
* * * *
89045098 ATGCCATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCATGTCCCAGACATGGTCTTACATGTAATCACATAACG
* * * * *
89045140 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCGA-TTAACT
1 ATGCCA-TGTCCCAGACATGGTCTTACATGTAATC-ACATAACG
89045183 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
1 ATGCC-ATGTCCCAGACATGGTCTTACATGTAATCACAT
89045222 CTCGTAACCT
Statistics
Matches: 65, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
42 7 0.11
43 56 0.86
44 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (42 bp):
ATGCCATGTCCCAGACATGGTCTTACATGTAATCACATAACG
Found at i:89048513 original size:23 final size:22
Alignment explanation
Indices: 89048468--89048513 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
89048458 CAACCAATCC
*
89048468 AATTCATCATATTTTCAAGATA
1 AATTCATCATATTTTCAAAATA
89048490 AATTCATGCATATTTAT-AAAATA
1 AATTCAT-CATATTT-TCAAAATA
89048513 A
1 A
89048514 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 7 0.33
23 13 0.62
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.04, T:0.39
Consensus pattern (22 bp):
AATTCATCATATTTTCAAAATA
Found at i:89054098 original size:62 final size:57
Alignment explanation
Indices: 89054017--89054149 Score: 167
Period size: 62 Copynumber: 2.2 Consensus size: 57
89054007 TCCAAAAATA
* * * *
89054017 ATATTATTTTAATATTTTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAATATT
1 ATATTATTTTAATAATTTAATATTAAATTTAATATAATATTTATC--AT-GATAAATATT
*
89054077 CTATTATTTTAATACGATTTAATATTAAATTTAATATAATATTTATCATGATAAATATT
1 ATATTATTTTAATA--ATTTAATATTAAATTTAATATAATATTTATCATGATAAATATT
*
89054136 ATATTAATTTAATA
1 ATATTATTTTAATA
89054150 TTAAAGTGAT
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
59 22 0.34
60 14 0.22
62 28 0.44
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (57 bp):
ATATTATTTTAATAATTTAATATTAAATTTAATATAATATTTATCATGATAAATATT
Found at i:89054110 original size:12 final size:12
Alignment explanation
Indices: 89054093--89054154 Score: 51
Period size: 12 Copynumber: 5.1 Consensus size: 12
89054083 TTTTAATACG
89054093 ATTTAATATTAA
1 ATTTAATATTAA
89054105 ATTTAATA-TAA
1 ATTTAATATTAA
89054116 TATTT-ATCATGATAA
1 -ATTTAAT-AT--TAA
89054131 ATATT-ATATT-A
1 AT-TTAATATTAA
89054142 ATTTAATATTAA
1 ATTTAATATTAA
89054154 A
1 A
89054155 GTGATTAAGT
Statistics
Matches: 42, Mismatches: 0, Indels: 16
0.72 0.00 0.28
Matches are distributed among these distances:
10 2 0.05
11 13 0.31
12 16 0.38
14 4 0.10
15 7 0.17
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (12 bp):
ATTTAATATTAA
Found at i:89057092 original size:12 final size:12
Alignment explanation
Indices: 89057075--89057099 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
89057065 GAGTAAGTGT
89057075 TTCTACTTAATC
1 TTCTACTTAATC
89057087 TTCTACTTAATC
1 TTCTACTTAATC
89057099 T
1 T
89057100 AATGGTGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (12 bp):
TTCTACTTAATC
Found at i:89057408 original size:23 final size:22
Alignment explanation
Indices: 89057373--89057450 Score: 86
Period size: 23 Copynumber: 3.5 Consensus size: 22
89057363 GTGGATGTGT
*
89057373 TTGGAGGGAATATTTGGTTATG
1 TTGGAGGGTATATTTGGTTATG
**
89057395 TTGG-GTGGCTATATTTGGTGGTG
1 TTGGAG-GG-TATATTTGGTTATG
*
89057418 TTGGAGGGTATGTTTGGTTATG
1 TTGGAGGGTATATTTGGTTATG
89057440 TTTGGAGGGTA
1 -TTGGAGGGTA
89057451 AATTGATTGT
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
21 1 0.02
22 17 0.37
23 27 0.59
24 1 0.02
ACGTcount: A:0.15, C:0.01, G:0.41, T:0.42
Consensus pattern (22 bp):
TTGGAGGGTATATTTGGTTATG
Found at i:89059126 original size:40 final size:40
Alignment explanation
Indices: 89059043--89059262 Score: 259
Period size: 40 Copynumber: 5.5 Consensus size: 40
89059033 ACCCAAGTAT
** * *
89059043 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
89059081 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
89059121 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
89059161 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
89059201 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
89059241 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
89059263 CATTCGAATA
Statistics
Matches: 154, Mismatches: 23, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 16 0.10
40 125 0.81
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:89067265 original size:40 final size:40
Alignment explanation
Indices: 89067182--89067401 Score: 223
Period size: 40 Copynumber: 5.5 Consensus size: 40
89067172 ACCCAAGTAT
** * *
89067182 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
89067220 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
89067260 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
89067300 CTTCGAGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * * *
89067340 CTTCGGATCTTAGTCCGGATATAGTTACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
89067380 CTTCGAGACTTAGCTCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
89067402 CATTTGAATA
Statistics
Matches: 149, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 16 0.11
40 121 0.81
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:89067314 original size:80 final size:79
Alignment explanation
Indices: 89067182--89067401 Score: 248
Period size: 80 Copynumber: 2.8 Consensus size: 79
89067172 ACCCAAGTAT
* * * * * *
89067182 CTTCGGGATTTAGCCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGGTC
1 CTTCGGGACTTAGCCGGATATAATCACTAGCACAAAAGCCTTCGAGTCTTAGCCCGGATATAG-C
*
89067246 -ACTAGCATAAATGC
65 AACTAGCACAAATGC
* *
89067260 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGCCTTCGAGTCTTAGCCCGGATATAGC
1 CTTCGGGACTTAG-CCGGATATAATCACTAGCACAAAAGCCTTCGAGTCTTAGCCCGGATATAGC
*
89067325 AACTCGCACAAATGC
65 AACTAGCACAAATGC
* * * * *
89067340 CTTC-GGATCTTAGTCCGGATATAGTTACTAGCATAAAAGCCTTCGAGACTTAGCTCGGATAT
1 CTTCGGGA-CTTAG-CCGGATATAATCACTAGCACAAAAGCCTTCGAGTCTTAGCCCGGATAT
89067402 CATTTGAATA
Statistics
Matches: 121, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
78 12 0.10
79 21 0.17
80 88 0.73
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (79 bp):
CTTCGGGACTTAGCCGGATATAATCACTAGCACAAAAGCCTTCGAGTCTTAGCCCGGATATAGCA
ACTAGCACAAATGC
Found at i:89070974 original size:20 final size:20
Alignment explanation
Indices: 89070949--89070986 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
89070939 AATATATGTG
*
89070949 GTCAAGCCACTATAATTGTA
1 GTCAAGCCACCATAATTGTA
*
89070969 GTCAAGCTACCATAATTG
1 GTCAAGCCACCATAATTG
89070987 ATATTGCAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (20 bp):
GTCAAGCCACCATAATTGTA
Found at i:89097534 original size:14 final size:13
Alignment explanation
Indices: 89097501--89097525 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89097491 ATAAATGTAA
89097501 ATTTTAATTTATG
1 ATTTTAATTTATG
89097514 ATTTTAATTTAT
1 ATTTTAATTTAT
89097526 TTATTTTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
ATTTTAATTTATG
Found at i:89098203 original size:2 final size:2
Alignment explanation
Indices: 89098196--89098230 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
89098186 TTTATAATCT
89098196 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
89098231 GCTATACGGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:89100774 original size:10 final size:10
Alignment explanation
Indices: 89100759--89100823 Score: 55
Period size: 10 Copynumber: 6.5 Consensus size: 10
89100749 TTATATTTTT
89100759 TAAAAAATTA
1 TAAAAAATTA
*
89100769 TAAAAATTTA
1 TAAAAAATTA
*
89100779 AAAAAAATT-
1 TAAAAAATTA
*
89100788 CAAAAAATATA
1 TAAAAAAT-TA
89100799 TAAAGAAAGTTA
1 TAAA-AAA-TTA
89100811 -AAAAAATTA
1 TAAAAAATTA
89100820 -AAAA
1 TAAAA
89100824 TTTTCTAGGA
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
9 14 0.30
10 20 0.43
11 6 0.13
12 5 0.11
13 1 0.02
ACGTcount: A:0.71, C:0.02, G:0.03, T:0.25
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:89100785 original size:20 final size:19
Alignment explanation
Indices: 89100760--89100823 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
89100750 TATATTTTTT
89100760 AAAAAATTATAAAAATTTAA
1 AAAAAATTA-AAAAATTTAA
89100780 AAAAAATTCAAAAAATATATAA
1 AAAAAATT-AAAAAAT-T-TAA
* * *
89100802 AGAAAGTTAAAAAAATTAA
1 AAAAAATTAAAAAATTTAA
89100821 AAA
1 AAA
89100824 TTTTCTAGGA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
19 5 0.14
20 15 0.41
21 8 0.22
22 9 0.24
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.23
Consensus pattern (19 bp):
AAAAAATTAAAAAATTTAA
Found at i:89105594 original size:20 final size:20
Alignment explanation
Indices: 89105569--89105606 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
89105559 GACGGAATAG
* *
89105569 AACCACGAAACTGTGAACAA
1 AACCACAAAAATGTGAACAA
89105589 AACCACAAAAATGTGAAC
1 AACCACAAAAATGTGAAC
89105607 TGAAATTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.24, G:0.13, T:0.11
Consensus pattern (20 bp):
AACCACAAAAATGTGAACAA
Found at i:89105916 original size:21 final size:20
Alignment explanation
Indices: 89105890--89105929 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
89105880 TTGGCCTAAC
*
89105890 AAACAAAATCTAAATTAAAAT
1 AAACAAAATC-AAATGAAAAT
89105911 AAACAAAATCAAATGAAAA
1 AAACAAAATCAAATGAAAA
89105930 GACAACTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.70, C:0.10, G:0.03, T:0.17
Consensus pattern (20 bp):
AAACAAAATCAAATGAAAAT
Found at i:89108540 original size:2 final size:2
Alignment explanation
Indices: 89108528--89108565 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
89108518 ACCAGAACAC
89108528 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
89108566 ATTGGTTTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:89112454 original size:46 final size:46
Alignment explanation
Indices: 89112404--89112529 Score: 198
Period size: 46 Copynumber: 2.7 Consensus size: 46
89112394 TGGTTGAGCA
* *
89112404 TCCGAACTCGCTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
89112450 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
89112496 CCCGAGCTCATTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
89112530 GGGGCGGGTT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:89129852 original size:29 final size:29
Alignment explanation
Indices: 89129820--89129950 Score: 163
Period size: 29 Copynumber: 4.5 Consensus size: 29
89129810 TGACGAGATC
*
89129820 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* *
89129849 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
*
89129878 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* * ** *
89129907 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
**
89129936 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
89129951 AGCTCGGAGG
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 90 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAAAATAT
Found at i:89133297 original size:47 final size:47
Alignment explanation
Indices: 89133243--89133338 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
89133233 AGTTACCTCA
*
89133243 TTTTGTTCTAACCTTGACAAATGATTGGCTACATCAGCTACTTGATT
1 TTTTGTTCTAACCCTGACAAATGATTGGCTACATCAGCTACTTGATT
89133290 TTTTGTTCTAACCCTGACAAATGATTGGCTACATCAGCTACTTGATT
1 TTTTGTTCTAACCCTGACAAATGATTGGCTACATCAGCTACTTGATT
89133337 TT
1 TT
89133339 CAACACCTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.41
Consensus pattern (47 bp):
TTTTGTTCTAACCCTGACAAATGATTGGCTACATCAGCTACTTGATT
Found at i:89135876 original size:21 final size:21
Alignment explanation
Indices: 89135851--89135898 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
89135841 GTGAATGAAC
89135851 GACATTATTGTTGATGAGCAT
1 GACATTATTGTTGATGAGCAT
89135872 GACATTATTGTTGATGAGCAT
1 GACATTATTGTTGATGAGCAT
89135893 GACATT
1 GACATT
89135899 GTGAATGAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.38
Consensus pattern (21 bp):
GACATTATTGTTGATGAGCAT
Found at i:89142903 original size:46 final size:45
Alignment explanation
Indices: 89142853--89143028 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
89142843 TGTTTGGGCA
89142853 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
89142899 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
89142946 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
89142992 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
89143029 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 1 0.01
46 68 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:89143008 original size:93 final size:93
Alignment explanation
Indices: 89142849--89143021 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
89142839 AGGATGTTTG
* * *
89142849 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
89142914 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
89142942 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
89143007 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
89143022 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:89145969 original size:15 final size:15
Alignment explanation
Indices: 89145949--89146017 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
89145939 GTATCTTGGG
89145949 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
89145964 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
89145979 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
89145994 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
89146009 TTTCTTTAT
1 TTTCTTTAT
89146018 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:89146018 original size:30 final size:30
Alignment explanation
Indices: 89145940--89146027 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
89145930 CATAGTATCG
* * * *
89145940 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
89145970 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
89146000 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
89146028 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:89148471 original size:46 final size:46
Alignment explanation
Indices: 89148421--89148595 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 46
89148411 GTTTGGGCAT
89148421 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
*** * *
89148467 CCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCAT--
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATGC
* *
89148514 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
* * *
89148560 CCGAGCTCATTGAGTTGAGTCTGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
89148596 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 66 0.61
47 31 0.29
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
Found at i:89148575 original size:93 final size:93
Alignment explanation
Indices: 89148416--89148587 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
89148406 AGGATGTTTG
* *
89148416 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
89148481 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
89148509 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
*
89148574 TTGAGTCTGAGTTC
66 TTGAGTCCGAGTTC
89148588 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:89154742 original size:39 final size:39
Alignment explanation
Indices: 89154688--89154763 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
89154678 TTTCGGCTCG
*
89154688 TTATCATTAACAATAGGATAATTATTATGTACCCCTATT
1 TTATCATTAACAATAGGATAATTATTATATACCCCTATT
* * *
89154727 TTATCCTTACCAATAGGATAATTATTCTATACCCCTA
1 TTATCATTAACAATAGGATAATTATTATATACCCCTA
89154764 CAAAACCTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (39 bp):
TTATCATTAACAATAGGATAATTATTATATACCCCTATT
Found at i:89163118 original size:24 final size:24
Alignment explanation
Indices: 89163088--89163144 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
89163078 CTCATCTTCT
89163088 TCATCTTCACCTCAACCCTCATCC
1 TCATCTTCACCTCAACCCTCATCC
* * * * *
89163112 TCATCTTAATCTCGACCCTCGTCT
1 TCATCTTCACCTCAACCCTCATCC
89163136 TCATCTTCA
1 TCATCTTCA
89163145 TTTCTATTCC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.19, C:0.42, G:0.04, T:0.35
Consensus pattern (24 bp):
TCATCTTCACCTCAACCCTCATCC
Found at i:89167369 original size:18 final size:18
Alignment explanation
Indices: 89167346--89167386 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
89167336 AGTCAGTCAA
89167346 CAGTAATAATCAGTTAAT
1 CAGTAATAATCAGTTAAT
* * *
89167364 CAGTAATATTCATTTATT
1 CAGTAATAATCAGTTAAT
89167382 CAGTA
1 CAGTA
89167387 TCAGTCGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (18 bp):
CAGTAATAATCAGTTAAT
Found at i:89167397 original size:18 final size:18
Alignment explanation
Indices: 89167363--89167422 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
89167353 AATCAGTTAA
* *
89167363 TCAGTAATATTCATTTAT
1 TCAGTAACAGTCATTTAT
* *
89167381 TCAGTATCAGTCGTTTAT
1 TCAGTAACAGTCATTTAT
* *
89167399 TCTGTAACAGTCAATTAT
1 TCAGTAACAGTCATTTAT
89167417 TCAGTA
1 TCAGTA
89167423 GCGGACAGTC
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (18 bp):
TCAGTAACAGTCATTTAT
Found at i:89167958 original size:37 final size:37
Alignment explanation
Indices: 89167917--89167990 Score: 89
Period size: 39 Copynumber: 2.0 Consensus size: 37
89167907 ACTTTCATTT
89167917 TCACTCAAT-ATTCAT-ATATTCTATTCAATATCAATAA
1 TCACT-AATAATTCATAATATTCTATTCAAT-TCAATAA
* *
89167954 TCACTAATAATTCATGAATTTTTTATTCAATTCAATA
1 TCACTAATAATTCAT-AATATTCTATTCAATTCAATA
89167991 CCATAATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
36 3 0.09
37 11 0.34
38 6 0.19
39 12 0.38
ACGTcount: A:0.39, C:0.16, G:0.01, T:0.43
Consensus pattern (37 bp):
TCACTAATAATTCATAATATTCTATTCAATTCAATAA
Found at i:89168093 original size:30 final size:30
Alignment explanation
Indices: 89168059--89168123 Score: 130
Period size: 30 Copynumber: 2.2 Consensus size: 30
89168049 ATTAAATTTG
89168059 GTTTATAGAAATACAAACTGTAATTCTCGA
1 GTTTATAGAAATACAAACTGTAATTCTCGA
89168089 GTTTATAGAAATACAAACTGTAATTCTCGA
1 GTTTATAGAAATACAAACTGTAATTCTCGA
89168119 GTTTA
1 GTTTA
89168124 CTCGATATCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.35
Consensus pattern (30 bp):
GTTTATAGAAATACAAACTGTAATTCTCGA
Found at i:89168691 original size:19 final size:19
Alignment explanation
Indices: 89168650--89168690 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
89168640 AACCCTTCAA
89168650 TTTT-TCCTTTCTTCTTTC
1 TTTTCTCCTTTCTTCTTTC
89168668 TTTTCTCCTTTCTTTCTTTC
1 TTTTCTCCTTTC-TTCTTTC
89168688 TTT
1 TTT
89168691 CCATGCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.19
19 7 0.33
20 10 0.48
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTCTCCTTTCTTCTTTC
Found at i:89176572 original size:46 final size:46
Alignment explanation
Indices: 89176520--89176691 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
89176510 TGGGCATCCA
89176520 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCG
* * * *
89176566 AACTCGTTGAGTTGAGTCCGGGTTC-GTGA--GATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G--TCCG
* * * **
89176613 AGCTTGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACACCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCG
* *
89176659 AGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
89176692 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 59 0.57
47 25 0.24
48 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCG
Found at i:89180093 original size:40 final size:39
Alignment explanation
Indices: 89180034--89180126 Score: 93
Period size: 40 Copynumber: 2.4 Consensus size: 39
89180024 CCATTTTTAC
* *
89180034 TTATTTATTTCA-TTCTTATTAGTATTATTTC-TTATTATT
1 TTATTTATTT-ATTTATTATT-GTACTATTTCATTATTATT
* *
89180073 GTTATTTATTTATTTATTATTTTACTATTTCATTCTTATT
1 -TTATTTATTTATTTATTATTGTACTATTTCATTATTATT
89180113 TT-TTTATTCTATTT
1 TTATTTATT-TATTT
89180127 TAGTGCTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
38 6 0.13
39 16 0.35
40 24 0.52
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.69
Consensus pattern (39 bp):
TTATTTATTTATTTATTATTGTACTATTTCATTATTATT
Found at i:89180114 original size:19 final size:20
Alignment explanation
Indices: 89180038--89180112 Score: 66
Period size: 19 Copynumber: 3.8 Consensus size: 20
89180028 TTTTACTTAT
* *
89180038 TTATTTCATTCTTATTAGTA
1 TTATTTCATTATTATTATTA
*
89180058 TTATTTC-TTATTATTGTTA
1 TTATTTCATTATTATTATTA
89180077 TTTATTT-ATTTATTATT-TTA
1 -TTATTTCA-TTATTATTATTA
* *
89180097 CTATTTCATTCTTATT
1 TTATTTCATTATTATT
89180113 TTTTTATTCT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
19 21 0.46
20 17 0.37
21 8 0.17
ACGTcount: A:0.23, C:0.08, G:0.03, T:0.67
Consensus pattern (20 bp):
TTATTTCATTATTATTATTA
Found at i:89180120 original size:19 final size:20
Alignment explanation
Indices: 89180037--89180120 Score: 61
Period size: 19 Copynumber: 4.3 Consensus size: 20
89180027 TTTTTACTTA
* *
89180037 TTTATTTCATTCTTATTAGT
1 TTTATTTCATTATTATTATT
* *
89180057 ATTATTTC-TTATTATTGTT
1 TTTATTTCATTATTATTATT
89180076 ATTTATTT-A-T-TTATTATT
1 -TTTATTTCATTATTATTATT
*
89180094 TTACTATTTCATTCTTATT-TT
1 TT--TATTTCATTATTATTATT
89180115 TTTATT
1 TTTATT
89180121 CTATTTTAGT
Statistics
Matches: 51, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
17 2 0.04
18 7 0.14
19 18 0.35
20 14 0.27
21 5 0.10
22 5 0.10
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTATTTCATTATTATTATT
Found at i:89185692 original size:3 final size:3
Alignment explanation
Indices: 89185684--89185734 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
89185674 GAGCACACTC
89185684 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
89185732 TTA
1 TTA
89185735 GATGAATGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Done.