Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold371
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: 1142270
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.15
Warning! 606714 characters in sequence are not A, C, G, or T
File 3 of 3
Found at i:971050 original size:22 final size:22
Alignment explanation
Indices: 971025--971093 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
971015 AAGTATATTC
971025 AGTTATGCTCATATGTACATTT
1 AGTTATGCTCATATGTACATTT
* * * * * *
971047 AGTTACAG-TGATAAGTATAGTC
1 AGTTA-TGCTCATATGTACATTT
971069 AGTTATGCTCATATGTACATTT
1 AGTTATGCTCATATGTACATTT
971091 AGT
1 AGT
971094 GACAGTTATA
Statistics
Matches: 33, Mismatches: 12, Indels: 4
0.67 0.24 0.08
Matches are distributed among these distances:
21 1 0.03
22 31 0.94
23 1 0.03
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.41
Consensus pattern (22 bp):
AGTTATGCTCATATGTACATTT
Found at i:971063 original size:44 final size:44
Alignment explanation
Indices: 970998--971099 Score: 159
Period size: 44 Copynumber: 2.3 Consensus size: 44
970988 ATATATATAT
*
970998 ATTTAGGTTACAGTCAAAAGTATATTCAGTTATGCTCATATGTAC
1 ATTTA-GTTACAGTCAAAAGTATAGTCAGTTATGCTCATATGTAC
* *
971043 ATTTAGTTACAGTGATAAGTATAGTCAGTTATGCTCATATGTAC
1 ATTTAGTTACAGTCAAAAGTATAGTCAGTTATGCTCATATGTAC
*
971087 ATTTAGTGACAGT
1 ATTTAGTTACAGT
971100 TATACATATA
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 48 0.91
45 5 0.09
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (44 bp):
ATTTAGTTACAGTCAAAAGTATAGTCAGTTATGCTCATATGTAC
Found at i:971665 original size:22 final size:22
Alignment explanation
Indices: 971629--971703 Score: 66
Period size: 22 Copynumber: 3.5 Consensus size: 22
971619 TTTTAGTCAT
*
971629 ATGTAC-TTCAGTTATA-ATGAA
1 ATGTACATTTAGTTATAGAT-AA
*
971650 ATGTACATTTAGTTATAGATAT
1 ATGTACATTTAGTTATAGATAA
* * *
971672 ATATACATTTAGTTA-CGATCAC
1 ATGTACATTTAGTTATAGAT-AA
971694 ATGTACATTT
1 ATGTACATTT
971704 TGTTCCACAT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
21 9 0.20
22 34 0.76
23 2 0.04
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.41
Consensus pattern (22 bp):
ATGTACATTTAGTTATAGATAA
Found at i:974154 original size:13 final size:13
Alignment explanation
Indices: 974136--974161 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
974126 TATAGCAAGT
974136 ATGTATCGATACA
1 ATGTATCGATACA
974149 ATGTATCGATACA
1 ATGTATCGATACA
974162 CAAAAAATTG
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:978244 original size:15 final size:15
Alignment explanation
Indices: 978224--978254 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
978214 TAAAAATGTC
*
978224 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
978239 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
978254 C
1 C
978255 TAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:980311 original size:25 final size:24
Alignment explanation
Indices: 980277--980359 Score: 93
Period size: 25 Copynumber: 3.5 Consensus size: 24
980267 CATGTTTCTG
980277 TGTATCGATACATCTGGAAATTCAA
1 TGTATCGATACAT-TGGAAATTCAA
* **
980302 TGTATCGATACA-T---ATTTCTT
1 TGTATCGATACATTGGAAATTCAA
980322 TGTATCGATACATTTGGAAATTCAA
1 TGTATCGATACA-TTGGAAATTCAA
980347 TGTATCGATACAT
1 TGTATCGATACAT
980360 ATTTCTTTGT
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
20 16 0.34
22 1 0.02
23 1 0.02
24 1 0.02
25 28 0.60
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (24 bp):
TGTATCGATACATTGGAAATTCAA
Found at i:980327 original size:20 final size:20
Alignment explanation
Indices: 980302--980379 Score: 84
Period size: 20 Copynumber: 3.6 Consensus size: 20
980292 GGAAATTCAA
980302 TGTATCGATACATATTTCTT
1 TGTATCGATACATATTTCTT
* **
980322 TGTATCGATACATTTGGAAATTCAA
1 TGTATCGATACA--T---ATTTCTT
980347 TGTATCGATACATATTTCTT
1 TGTATCGATACATATTTCTT
980367 TGTATCGATACAT
1 TGTATCGATACAT
980380 TGTATCGATA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
20 29 0.62
22 1 0.02
23 1 0.02
25 16 0.34
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.44
Consensus pattern (20 bp):
TGTATCGATACATATTTCTT
Found at i:980380 original size:45 final size:45
Alignment explanation
Indices: 980255--980380 Score: 225
Period size: 45 Copynumber: 2.8 Consensus size: 45
980245 AAATGTCCAA
* * *
980255 AATGTATCGATACATGTTTCTGTGTATCGATACATCTGGAAATTC
1 AATGTATCGATACATATTTCTTTGTATCGATACATTTGGAAATTC
980300 AATGTATCGATACATATTTCTTTGTATCGATACATTTGGAAATTC
1 AATGTATCGATACATATTTCTTTGTATCGATACATTTGGAAATTC
980345 AATGTATCGATACATATTTCTTTGTATCGATACATT
1 AATGTATCGATACATATTTCTTTGTATCGATACATT
980381 GTATCGATAC
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 78 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.41
Consensus pattern (45 bp):
AATGTATCGATACATATTTCTTTGTATCGATACATTTGGAAATTC
Found at i:980384 original size:13 final size:13
Alignment explanation
Indices: 980366--980391 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
980356 ACATATTTCT
980366 TTGTATCGATACA
1 TTGTATCGATACA
980379 TTGTATCGATACA
1 TTGTATCGATACA
980392 GGGTGATTAT
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):
TTGTATCGATACA
Found at i:982950 original size:13 final size:13
Alignment explanation
Indices: 982932--982957 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
982922 TACAGCAAGT
982932 ATGTATCGATACA
1 ATGTATCGATACA
982945 ATGTATCGATACA
1 ATGTATCGATACA
982958 CAAAAAATTA
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:987221 original size:79 final size:79
Alignment explanation
Indices: 987097--987332 Score: 201
Period size: 79 Copynumber: 3.0 Consensus size: 79
987087 AGGTTGGTGT
* * ** * * *
987097 ATCCCCTTGAAAATAACGGGGTT-AGAGTATCCCCGGTTGTGAAAAA-TCGATGATTTGGAAATA
1 ATCCCCTCGAAAATAATGGGGTTGA-AGTATCCCCGACTATAAAAAACT-GATGATTTAGAAATA
*
987160 AAA-TCGGGATTTGAGC
64 AAACT-GGGATTGGAGC
* *
987176 ATCCCCTCGGAAATAATGGGGTTGAAGTATCCCCGACTATAAAAAACTGATGTTTTAGAAATAAA
1 ATCCCCTCGAAAATAATGGGGTTGAAGTATCCCCGACTATAAAAAACTGATGATTTAGAAATAAA
* *
987241 ACTGGGGTTGGAGT
66 ACTGGGATTGGAGC
* * * * * * * * * *
987255 ATCCCCTCAAAAATAATAGGGTTGGAGTATCTCCGATTATGAGAAATTAAT-ATTTTAGAAATGA
1 ATCCCCTCGAAAATAATGGGGTTGAAGTATCCCCGACTATAAAAAACTGATGA-TTTAGAAATAA
*
987319 AACCGGGATTGGAG
65 AACTGGGATTGGAG
987333 TATTCCCGAG
Statistics
Matches: 127, Mismatches: 26, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
79 124 0.98
80 3 0.02
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (79 bp):
ATCCCCTCGAAAATAATGGGGTTGAAGTATCCCCGACTATAAAAAACTGATGATTTAGAAATAAA
ACTGGGATTGGAGC
Found at i:987333 original size:79 final size:79
Alignment explanation
Indices: 987154--987335 Score: 211
Period size: 79 Copynumber: 2.3 Consensus size: 79
987144 CGATGATTTG
* * * ** *
987154 GAAATAAAATCGGGATTTGAGCATCCCCTCGGAAATAATGGGGTTGAAGTATCCCCGACTATAAA
1 GAAATAAAACCGGGATTGGAGTATCCCCTCAAAAATAATAGGGTTGAAGTATCCCCGACTATAAA
* *
987219 AAACTGATGTTTTA
66 AAACTAATATTTTA
* * * * * * *
987233 GAAATAAAACTGGGGTTGGAGTATCCCCTCAAAAATAATAGGGTTGGAGTATCTCCGATTATGAG
1 GAAATAAAACCGGGATTGGAGTATCCCCTCAAAAATAATAGGGTTGAAGTATCCCCGACTATAAA
*
987298 AAATTAATATTTTA
66 AAACTAATATTTTA
*
987312 GAAATGAAACCGGGATTGGAGTAT
1 GAAATAAAACCGGGATTGGAGTAT
987336 TCCCGAGATG
Statistics
Matches: 84, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
79 84 1.00
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.27
Consensus pattern (79 bp):
GAAATAAAACCGGGATTGGAGTATCCCCTCAAAAATAATAGGGTTGAAGTATCCCCGACTATAAA
AAACTAATATTTTA
Found at i:988408 original size:21 final size:21
Alignment explanation
Indices: 988382--988438 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
988372 AAAAATTCCA
988382 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
988403 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
988424 AATGTATCGATACAT
1 AATGTATCGATACAT
988439 CCTACAAATG
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:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:988518 original size:19 final size:19
Alignment explanation
Indices: 988494--988561 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
988484 AATTCAACAA
988494 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
988513 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
988528 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
* *
988545 ATTATATCGATACATAA
1 TTTGTATCGATACATAA
988562 TTAGCTACTG
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 27 0.64
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:988533 original size:13 final size:13
Alignment explanation
Indices: 988515--988539 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
988505 ACATAAGTTT
988515 TGTATCGATACAA
1 TGTATCGATACAA
988528 TGTATCGATACA
1 TGTATCGATACA
988540 TAAGTATTAT
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:988537 original size:32 final size:32
Alignment explanation
Indices: 988496--988558 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
988486 TTCAACAATT
* *
988496 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTATATCGATACAA
988528 TGTATCGATACATAAGTATTATATCGATACA
1 TGTATCGATACATAAGTATTATATCGATACA
988559 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTATATCGATACAA
Found at i:988619 original size:13 final size:13
Alignment explanation
Indices: 988601--988626 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
988591 CATTTTTCTG
988601 TGTATCGATACAT
1 TGTATCGATACAT
988614 TGTATCGATACAT
1 TGTATCGATACAT
988627 GGATCTTTGT
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:988623 original size:33 final size:33
Alignment explanation
Indices: 988581--988647 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
988571 GCCAAGGAAA
***
988581 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
988614 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
988647 T
1 T
988648 TGGAAATTTT
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:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:991085 original size:52 final size:52
Alignment explanation
Indices: 990966--991098 Score: 144
Period size: 52 Copynumber: 2.6 Consensus size: 52
990956 TTGAGTTTCT
* * * * *
990966 CAATTCTCCACAATCGGGGATATTCCAA-TCCCGGTTTTATTTTCAAAACGC
1 CAATTTTCCACAATCGGGGATACTCCAACTCCCGATTTTATTTCCAAAACAC
** *
991017 CAATTTTCCTTTAATCGGGGATACTCCAACT-CCGATTTTATTTCCAAAAATAC
1 CAATTTTCC-ACAATCGGGGATACTCCAACTCCCGATTTTATTTCC-AAAACAC
* *
991070 CAATTTTTCACAATCGAGGATACTCCAAC
1 CAATTTTCCACAATCGGGGATACTCCAAC
991099 CTCGTTATTT
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
51 8 0.12
52 45 0.67
53 14 0.21
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.32
Consensus pattern (52 bp):
CAATTTTCCACAATCGGGGATACTCCAACTCCCGATTTTATTTCCAAAACAC
Found at i:991118 original size:28 final size:28
Alignment explanation
Indices: 991082--991158 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
991072 ATTTTTCACA
* * *
991082 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
991110 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
991138 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
991159 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:991225 original size:107 final size:107
Alignment explanation
Indices: 991033--991237 Score: 252
Period size: 107 Copynumber: 1.9 Consensus size: 107
991023 TCCTTTAATC
* * *
991033 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
*
991098 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGA
66 CCCCGTTATTT-ATCGGGGATACTCCAACCCCGTTACTTCCGA
* * *** * * *
991141 GGGGATACTCCAACCCCGGCTTTA-TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
*
991205 CCCCGTTATTT-TCGAAGGGATACTCCAATCCCG
66 CCCCGTTATTTATCG--GGGATACTCCAACCCCG
991238 ATTTTTTTTT
Statistics
Matches: 82, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
105 3 0.04
107 58 0.71
108 21 0.26
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
CCCCGTTATTTATCGGGGATACTCCAACCCCGTTACTTCCGA
Found at i:1003734 original size:17 final size:17
Alignment explanation
Indices: 1003712--1003765 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 17
1003702 CCTTCTCTTC
* *
1003712 AAAAAAAAAAAGAGCAA
1 AAAAAAAAAAAAAACAA
1003729 AAAAAAAAAAAAAACAA
1 AAAAAAAAAAAAAACAA
* * *
1003746 AAAAACAAAACAAAGAA
1 AAAAAAAAAAAAAACAA
1003763 AAA
1 AAA
1003766 GAGAGAAAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.87, C:0.07, G:0.06, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAAACAA
Found at i:1004829 original size:55 final size:55
Alignment explanation
Indices: 1004744--1005476 Score: 1137
Period size: 55 Copynumber: 13.3 Consensus size: 55
1004734 TCCGCTTTTT
*
1004744 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
*
1004799 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
1004854 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
1004909 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
1004964 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
1005019 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
1005074 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
1005129 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
1005184 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
1005239 AGTCCCCAAAGAGCAGGACACCT-TTCAAAGCCCACCCAAGTTGGTGGCA-TTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1005293 TAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 -AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
1005349 AGTCCCCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTGGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* * * *
1005404 AGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* *
1005459 ACTCCTCAATGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
1005477 TACAATTTAT
Statistics
Matches: 637, Mismatches: 25, Indels: 32
0.92 0.04 0.05
Matches are distributed among these distances:
54 20 0.03
55 596 0.94
56 21 0.03
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:1005356 original size:29 final size:29
Alignment explanation
Indices: 1005324--1005408 Score: 70
Period size: 29 Copynumber: 3.0 Consensus size: 29
1005314 CCTCTTAAAG
*
1005324 CCCACACAAGTTGGTGGCACCTTTCAGTC
1 CCCACACAAGTCGGTGGCACCTTTCAGTC
* * ***
1005353 CCCA-A-AGAG-CAG-GACACCTTTCAAAG
1 CCCACACA-AGTCGGTGGCACCTTTCAGTC
*
1005379 CCCACACAAGTGGGTGGCACCTTTCAGTC
1 CCCACACAAGTCGGTGGCACCTTTCAGTC
1005408 C
1 C
1005409 TCAAAGAGCA
Statistics
Matches: 39, Mismatches: 12, Indels: 10
0.64 0.20 0.16
Matches are distributed among these distances:
26 14 0.36
27 5 0.13
28 5 0.13
29 15 0.38
ACGTcount: A:0.26, C:0.34, G:0.21, T:0.19
Consensus pattern (29 bp):
CCCACACAAGTCGGTGGCACCTTTCAGTC
Found at i:1008387 original size:52 final size:52
Alignment explanation
Indices: 1008268--1008400 Score: 144
Period size: 52 Copynumber: 2.6 Consensus size: 52
1008258 TTGAGTTTCT
* * * * *
1008268 CAATTCTCCACAATCGGGGATATTCCAA-TCCCGGTTTTATTTTCAAAACGC
1 CAATTTTCCACAATCGGGGATACTCCAACTCCCGATTTTATTTCCAAAACAC
** *
1008319 CAATTTTCCTTTAATCGGGGATACTCCAACT-CCGATTTTATTTCCAAAAATAC
1 CAATTTTCC-ACAATCGGGGATACTCCAACTCCCGATTTTATTTCC-AAAACAC
* *
1008372 CAATTTTTCACAATCGAGGATACTCCAAC
1 CAATTTTCCACAATCGGGGATACTCCAAC
1008401 CTCGTTATTT
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
51 8 0.12
52 45 0.67
53 14 0.21
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.32
Consensus pattern (52 bp):
CAATTTTCCACAATCGGGGATACTCCAACTCCCGATTTTATTTCCAAAACAC
Found at i:1008420 original size:28 final size:28
Alignment explanation
Indices: 1008384--1008460 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
1008374 ATTTTTCACA
* * *
1008384 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
1008412 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
1008440 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
1008461 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:1008527 original size:107 final size:107
Alignment explanation
Indices: 1008335--1008539 Score: 252
Period size: 107 Copynumber: 1.9 Consensus size: 107
1008325 TCCTTTAATC
* * *
1008335 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
*
1008400 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGA
66 CCCCGTTATTT-ATCGGGGATACTCCAACCCCGTTACTTCCGA
* * *** * * *
1008443 GGGGATACTCCAACCCCGGCTTTA-TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
*
1008507 CCCCGTTATTT-TCGAAGGGATACTCCAATCCCG
66 CCCCGTTATTTATCG--GGGATACTCCAACCCCG
1008540 ATTTTTTTTT
Statistics
Matches: 82, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
105 3 0.04
107 58 0.71
108 21 0.26
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
CCCCGTTATTTATCGGGGATACTCCAACCCCGTTACTTCCGA
Found at i:1011099 original size:19 final size:19
Alignment explanation
Indices: 1011071--1011120 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
1011061 AGCGATACAT
*
1011071 TGTATTGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
1011090 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
*
1011109 TATATCGATACA
1 TGTATCGATACA
1011121 TTTACTATTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:1012098 original size:55 final size:55
Alignment explanation
Indices: 1012025--1012372 Score: 538
Period size: 55 Copynumber: 6.2 Consensus size: 55
1012015 GAAAGCATCT
* *
1012025 TGCTCTTTGAGGACTGGAAA-ATGCCCCCAACTTGTGTGGGCTTTGAAAGGCATCC
1 TGCTCTTTGAGGACT-GAAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
* * *
1012080 TGCTCTTTGAGGATTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCC
1 TGCTCTTTGAGGACT-GAAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
*
1012135 TGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
1 TGCTCTTTGAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
*
1012190 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
1 TGCTCTTTGAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
*
1012245 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
1 TGCTCTTTGAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
*
1012300 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGCGTCC
1 TGCTCTTTGAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTTGAAA-G----GCGTCC
1012360 TGCTCTTTGAGGA
1 TGCTCTTTGAGGA
1012373 TAGAAAAGTG
Statistics
Matches: 277, Mismatches: 10, Indels: 7
0.94 0.03 0.02
Matches are distributed among these distances:
54 4 0.01
55 253 0.91
56 1 0.00
60 19 0.07
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (55 bp):
TGCTCTTTGAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
Found at i:1012170 original size:110 final size:112
Alignment explanation
Indices: 1011900--1012372 Score: 643
Period size: 110 Copynumber: 4.1 Consensus size: 112
1011890 ATAAAGTGCA
* * *
1011900 TCCTGCTCTTTGAGGACT-AAAAAGTGCCAGCAACTCGTGTGGGCTTTGAAAAGGAATAGTGTCC
1 TCCTGCTCTTTGAGGACTGAAAAA-TGCCACCAACTTGTGTGGGCTTTG-AAAGG--CA---TCC
*
1011964 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCA
59 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT---AAGA-AAAGCG
* * *
1012022 TCTTGCTCTTTGAGGACTGGAAAATGCCCCCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTT
* *
1012087 TGAGGATTGGAAA-ATGCCACCAACTTGTGTGGGCTTT-A-AAAAGCG
66 TGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAAAAGCG
*
1012132 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTT
*
1012197 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--GAAAGGCG
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAAAAGCG
** *
1012242 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTT
1012307 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGCG
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AA-GAAAAGCG
1012357 TCCTGCTCTTTGAGGA
1 TCCTGCTCTTTGAGGA
1012373 TAGAAAAGTG
Statistics
Matches: 323, Mismatches: 19, Indels: 25
0.88 0.05 0.07
Matches are distributed among these distances:
109 4 0.01
110 202 0.63
111 1 0.00
112 1 0.00
115 23 0.07
116 40 0.12
117 4 0.01
119 1 0.00
121 5 0.02
122 38 0.12
123 4 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.27
Consensus pattern (112 bp):
TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTT
TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAAAAGCG
Found at i:1012208 original size:26 final size:26
Alignment explanation
Indices: 1012178--1012320 Score: 92
Period size: 26 Copynumber: 5.3 Consensus size: 26
1012168 GTGTGGGCTT
1012178 TGAAAGGCGTCCTGCTCTTTGAGGAC
1 TGAAAGGCGTCCTGCTCTTTGAGGAC
* ** * * *
1012204 TGAAAGGTG-CCACCAACTTGTGTGGGC
1 TGAAAGGCGTCCTGC-TCTT-TGAGGAC
1012231 TTTGAAAGGCGTCCTGCTCTTTGAGGAC
1 --TGAAAGGCGTCCTGCTCTTTGAGGAC
* ** * * *
1012259 TGAAAGGTG-CCACCAACTTGTGTGGGC
1 TGAAAGGCGTCCTGC-TCTT-TGAGGAC
1012286 TTTGAAAGGCGTCCTGCTCTTTGAGGAC
1 --TGAAAGGCGTCCTGCTCTTTGAGGAC
1012314 TGAAAGG
1 TGAAAGG
1012321 TGCCACCAAC
Statistics
Matches: 83, Mismatches: 24, Indels: 20
0.65 0.19 0.16
Matches are distributed among these distances:
25 6 0.07
26 29 0.35
27 10 0.12
28 10 0.12
29 22 0.27
30 6 0.07
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (26 bp):
TGAAAGGCGTCCTGCTCTTTGAGGAC
Found at i:1012248 original size:165 final size:165
Alignment explanation
Indices: 1011892--1012372 Score: 633
Period size: 165 Copynumber: 2.8 Consensus size: 165
1011882 AGAGGAAAAT
* * *
1011892 AAAGTGCATCCTGCTCTTTGAGGACTAAAAAGTGCCAGCAACTCGTGTGGGCTTTGAAAAGGAAT
1 AAAG-GCATCCTGCTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTT---AA--AA-
* *
1011957 AGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCA
58 AGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG--AA-AG--AGCG
* *
1012022 TCTTGCTCTTTGAGGACTGGAAAATGCCCCCAACTTGTGTGGGCTTTG
118 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG
*
1012070 AAAGGCATCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCC
1 AAAGGCATCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCC
**
1012135 TGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAG-GCGTCCTGCTCTTTG
65 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAGCGTCCTGCTCTTTG
*
1012199 AGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTG
130 AGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTG
* * * *
1012235 AAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
1 AAAGGCATCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCC
1012300 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGCGTCCTGCTC
65 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAA-G---AGCGTCCTGCTC
1012365 TTTGAGGA
126 TTTGAGGA
1012373 TAGAAAAGTG
Statistics
Matches: 277, Mismatches: 18, Indels: 24
0.87 0.06 0.08
Matches are distributed among these distances:
164 8 0.03
165 143 0.52
166 1 0.00
168 2 0.01
169 2 0.01
170 19 0.07
171 49 0.18
172 2 0.01
174 2 0.01
177 41 0.15
178 8 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (165 bp):
AAAGGCATCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCT
GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAGCGTCCTGCTCTTTGA
GGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG
Found at i:1023603 original size:21 final size:21
Alignment explanation
Indices: 1023570--1023612 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
1023560 ACGATAAAAC
*
1023570 AAAACAAATAAATACCTCAAA
1 AAAACAAACAAATACCTCAAA
*
1023591 AAAATAAACAAATACCTCAAA
1 AAAACAAACAAATACCTCAAA
1023612 A
1 A
1023613 TAGAGATAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.67, C:0.19, G:0.00, T:0.14
Consensus pattern (21 bp):
AAAACAAACAAATACCTCAAA
Found at i:1025746 original size:79 final size:78
Alignment explanation
Indices: 1025663--1025907 Score: 260
Period size: 79 Copynumber: 3.1 Consensus size: 78
1025653 ATAATAAGGC
* * * * * *
1025663 TGGAGTATCCCCTTGCAAATAACGGGGTTGGAGAATCTCCGGTTGTGAAAAATCGATGATTTGGA
1 TGGAGTATCCCCTCGCAAATAACGGGGTTGGAGTATC-CCGATTATGAAAAATTGATGATTTAGA
*
1025728 AATAAAATCGGGAT
65 AATAAAACCGGGAT
* * * * * * *
1025742 TGGAGCATCCCATCGAAAATAACGGGGTTGAAGTATCCCTGACTATAAAAAATTGATGTTTTAGA
1 TGGAGTATCCCCTCGCAAATAACGGGGTTGGAGTATCCC-GATTATGAAAAATTGATGATTTAGA
*
1025807 AATAAAACCGGGGT
65 AATAAAACCGGGAT
* * * *
1025821 TGGAGTATCCCCCTGGC-AATAGCGGGGTTGGAGTATCCTCGATTATGAGAAATTAAT-ATTTTA
1 TGGAGTAT-CCCCTCGCAAATAACGGGGTTGGAGTATCC-CGATTATGAAAAATTGATGA-TTTA
1025884 GAAATAAAACCGGGAT
63 GAAATAAAACCGGGAT
1025900 TGGAGTAT
1 TGGAGTAT
1025908 TCTCGAGATG
Statistics
Matches: 135, Mismatches: 27, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
78 2 0.01
79 127 0.94
80 6 0.04
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (78 bp):
TGGAGTATCCCCTCGCAAATAACGGGGTTGGAGTATCCCGATTATGAAAAATTGATGATTTAGAA
ATAAAACCGGGAT
Found at i:1028238 original size:20 final size:20
Alignment explanation
Indices: 1028198--1028239 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1028188 AAAATGCTTG
*
1028198 AATGTATTGATACATTGGGT
1 AATGTATTGATACATTAGGT
1028218 AATGTA-TGATACATCTAGGT
1 AATGTATTGATACAT-TAGGT
1028238 AA
1 AA
1028240 AATTTTCAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (20 bp):
AATGTATTGATACATTAGGT
Found at i:1028353 original size:19 final size:19
Alignment explanation
Indices: 1028329--1028412 Score: 63
Period size: 19 Copynumber: 4.6 Consensus size: 19
1028319 CAATACATTA
1028329 TATCGATACAAAACTTATG
1 TATCGATACAAAACTTATG
1028348 TATCGATAC---A--T-TG
1 TATCGATACAAAACTTATG
* *
1028361 TATCGATACAACACTTATA
1 TATCGATACAAAACTTATG
** *
1028380 TATCGATACATTTACTGTTTG
1 TATCGATACA-AAACT-TATG
1028401 TATCGATACAAA
1 TATCGATACAAA
1028413 TTATTTGAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 15
0.69 0.10 0.21
Matches are distributed among these distances:
13 11 0.22
14 1 0.02
16 2 0.04
18 1 0.02
19 20 0.40
20 3 0.06
21 12 0.24
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.36
Consensus pattern (19 bp):
TATCGATACAAAACTTATG
Found at i:1028364 original size:13 final size:13
Alignment explanation
Indices: 1028346--1028370 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1028336 ACAAAACTTA
1028346 TGTATCGATACAT
1 TGTATCGATACAT
1028359 TGTATCGATACA
1 TGTATCGATACA
1028371 ACACTTATAT
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:1028365 original size:32 final size:32
Alignment explanation
Indices: 1028321--1028391 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
1028311 CTTTGTAGCA
*
1028321 ATACATTATATCGATACAAAACTTATGTATCG
1 ATACATTATATCGATACAAAACTTATATATCG
* *
1028353 ATACATTGTATCGATACAACACTTATATATCG
1 ATACATTATATCGATACAAAACTTATATATCG
1028385 ATACATT
1 ATACATT
1028392 TACTGTTTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.35
Consensus pattern (32 bp):
ATACATTATATCGATACAAAACTTATATATCG
Found at i:1031378 original size:20 final size:20
Alignment explanation
Indices: 1031355--1031393 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1031345 ACTATGTATC
1031355 GATACAATGTATCGATACAT
1 GATACAATGTATCGATACAT
*
1031375 GATACATTGTATCGATACA
1 GATACAATGTATCGATACA
1031394 AATAGTGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (20 bp):
GATACAATGTATCGATACAT
Found at i:1031393 original size:13 final size:13
Alignment explanation
Indices: 1031348--1031373 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1031338 ACTTTTCACT
1031348 ATGTATCGATACA
1 ATGTATCGATACA
1031361 ATGTATCGATACA
1 ATGTATCGATACA
1031374 TGATACATTG
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:1031468 original size:19 final size:19
Alignment explanation
Indices: 1031422--1031474 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
1031412 ACTGCCAGTT
**
1031422 TCATGTATCGATA-CAATT
1 TCATGTATCGATACCAAGA
1031440 TACTATGTATCGATACCAAGA
1 T-C-ATGTATCGATACCAAGA
*
1031461 TCATGTATTGATAC
1 TCATGTATCGATAC
1031475 AGTGTATCGA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 1 0.03
19 12 0.41
20 12 0.41
21 4 0.14
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (19 bp):
TCATGTATCGATACCAAGA
Found at i:1033510 original size:53 final size:53
Alignment explanation
Indices: 1033383--1033515 Score: 189
Period size: 53 Copynumber: 2.5 Consensus size: 53
1033373 CAGTATCTTT
* * * * *
1033383 ATTTTTATTATTTTTTAAATAATAATTTGGAATTTAATATACACTATTTTTAA
1 ATTTTTATTATTTTTTAAATAGTTATTTGAAATTTAATATAAAATATTTTTAA
1033436 ATTTTTATTATTTTTTAAATAGTTATTTGAAATTTAATATAAAATATTTTTTAA
1 ATTTTTATTATTTTTTAAATAGTTATTTGAAATTTAATATAAAATA-TTTTTAA
*
1033490 TTTTTTATTA-TTTTTAAATAG-TATTT
1 ATTTTTATTATTTTTTAAATAGTTATTT
1033516 TTAATATATA
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
52 5 0.07
53 52 0.71
54 16 0.22
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.59
Consensus pattern (53 bp):
ATTTTTATTATTTTTTAAATAGTTATTTGAAATTTAATATAAAATATTTTTAA
Found at i:1033917 original size:20 final size:20
Alignment explanation
Indices: 1033894--1033965 Score: 99
Period size: 20 Copynumber: 3.6 Consensus size: 20
1033884 ACAATTCAAA
*
1033894 GTATCAATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1033914 GTATCGATACATGAAAAAAT
1 GTATCGATACATGTTGCAAT
1033934 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1033954 GTATCGATACAT
1 GTATCGATACAT
1033966 AAAAAAGATG
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1033938 original size:40 final size:41
Alignment explanation
Indices: 1033894--1033986 Score: 161
Period size: 40 Copynumber: 2.3 Consensus size: 41
1033884 ACAATTCAAA
* *
1033894 GTATCAATACATGTTGCAATGTATCGATACATGAAAAA-AT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1033934 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1033975 GTATCGATACAT
1 GTATCGATACAT
1033987 TTCTTGGCAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
40 36 0.72
41 14 0.28
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:1038119 original size:15 final size:15
Alignment explanation
Indices: 1038099--1038129 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1038089 TAAAAATGTC
*
1038099 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1038114 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1038129 C
1 C
1038130 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1040227 original size:13 final size:13
Alignment explanation
Indices: 1040209--1040246 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1040199 CATTTTTATT
1040209 TGTATCGATACAA
1 TGTATCGATACAA
*
1040222 TGTATCGATACAC
1 TGTATCGATACAA
1040235 TGTATCGATACA
1 TGTATCGATACA
1040247 GGGTGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1042141 original size:48 final size:48
Alignment explanation
Indices: 1042087--1042182 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
1042077 GGGGAGATAA
1042087 AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
1 AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
1042135 AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
1 AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
1042183 CGTAAAATTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.38, C:0.08, G:0.29, T:0.25
Consensus pattern (48 bp):
AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
Found at i:1042759 original size:20 final size:20
Alignment explanation
Indices: 1042736--1042807 Score: 108
Period size: 20 Copynumber: 3.6 Consensus size: 20
1042726 ACAATTCAAA
1042736 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1042756 GTATCGATACATGAAAAAAT
1 GTATCGATACATGTTGCAAT
1042776 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1042796 GTATCGATACAT
1 GTATCGATACAT
1042808 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1042780 original size:40 final size:41
Alignment explanation
Indices: 1042736--1042828 Score: 170
Period size: 40 Copynumber: 2.3 Consensus size: 41
1042726 ACAATTCAAA
*
1042736 GTATCGATACATGTTGCAATGTATCGATACATGAAAAA-AT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1042776 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1042817 GTATCGATACAT
1 GTATCGATACAT
1042829 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 37 0.73
41 14 0.27
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:1042885 original size:13 final size:13
Alignment explanation
Indices: 1042867--1042892 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1042857 TACAGCAAGT
1042867 ATGTATCGATACA
1 ATGTATCGATACA
1042880 ATGTATCGATACA
1 ATGTATCGATACA
1042893 CAAAAAATTG
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:1043747 original size:35 final size:35
Alignment explanation
Indices: 1043706--1043781 Score: 98
Period size: 35 Copynumber: 2.2 Consensus size: 35
1043696 TTTTTTATAA
1043706 ATTTTTAAATAATAATTTAGAATTTAATATAAAAT
1 ATTTTTAAATAATAATTTAGAATTTAATATAAAAT
* * * * * *
1043741 GTTTTTAAATAGTTATTTGGGATTTAATGTAAAAT
1 ATTTTTAAATAATAATTTAGAATTTAATATAAAAT
1043776 ATTTTT
1 ATTTTT
1043782 TAATCTTTTA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (35 bp):
ATTTTTAAATAATAATTTAGAATTTAATATAAAAT
Found at i:1043939 original size:51 final size:50
Alignment explanation
Indices: 1043823--1043951 Score: 174
Period size: 50 Copynumber: 2.5 Consensus size: 50
1043813 AGATTTAGAA
1043823 TGAAATTTAA-ATCAAAATTTTTTTAATTTTTATTATTTTTAAATAATAATT
1 TGAAATTTAATAT-AAAA-TTTTTTAATTTTTATTATTTTTAAATAATAATT
* *
1043874 TGAGA-TTAATATAAAATTTTTTAATTTTTAATTATTTTTCAATAATAATT
1 TGAAATTTAATATAAAATTTTTTAATTTTT-ATTATTTTTAAATAATAATT
1043924 T-ATAATTTAATATAAAATATTTTTAATT
1 TGA-AATTTAATATAAAAT-TTTTTAATT
1043952 ATTTGCACCT
Statistics
Matches: 70, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
49 14 0.20
50 29 0.41
51 18 0.26
52 9 0.13
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (50 bp):
TGAAATTTAATATAAAATTTTTTAATTTTTATTATTTTTAAATAATAATT
Found at i:1044630 original size:16 final size:17
Alignment explanation
Indices: 1044593--1044624 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1044583 ACTTTTTCTT
1044593 ATTTA-TTATCAAATAA
1 ATTTATTTATCAAATAA
1044609 ATTTATTTATCAAATA
1 ATTTATTTATCAAATA
1044625 TTTTATATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTTATTTATCAAATAA
Found at i:1044647 original size:19 final size:20
Alignment explanation
Indices: 1044620--1044659 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
1044610 TTTATTTATC
1044620 AAATATTTTATATA-AAATT
1 AAATATTTTATATATAAATT
* *
1044639 AAATTTTTTATTTATAAATT
1 AAATATTTTATATATAAATT
1044659 A
1 A
1044660 GATAAATCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AAATATTTTATATATAAATT
Found at i:1045121 original size:12 final size:12
Alignment explanation
Indices: 1045104--1045134 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
1045094 GTTTAAGGTA
1045104 TTATATAAATTT
1 TTATATAAATTT
1045116 TTATATAAATTT
1 TTATATAAATTT
*
1045128 TAATATA
1 TTATATA
1045135 TTAATATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TTATATAAATTT
Found at i:1045179 original size:32 final size:32
Alignment explanation
Indices: 1045120--1045180 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
1045110 AAATTTTTAT
* *
1045120 ATAAATTTTAATATATTAATATTTTTATTAAA
1 ATAAATTTTAATAAATTAATATATTTATTAAA
* *
1045152 ATAAATTTTAATAAATTTATGTATTTATT
1 ATAAATTTTAATAAATTAATATATTTATT
1045181 TGTGTTTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (32 bp):
ATAAATTTTAATAAATTAATATATTTATTAAA
Found at i:1045214 original size:23 final size:22
Alignment explanation
Indices: 1045188--1045240 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
1045178 ATTTGTGTTT
1045188 ATATTAT-TGATTTTAATTATATC
1 ATATTATATGATTTT--TTATATC
* *
1045211 ATATTTATATTATTTTTTATATT
1 ATA-TTATATGATTTTTTATATC
1045234 ATATTAT
1 ATATTAT
1045241 GTATAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 4 0.15
23 12 0.46
24 4 0.15
25 6 0.23
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (22 bp):
ATATTATATGATTTTTTATATC
Found at i:1045222 original size:16 final size:14
Alignment explanation
Indices: 1045185--1045235 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 14
1045175 TTTATTTGTG
*
1045185 TTTATATTATTGAT
1 TTTATATTATTCAT
1045199 TTTA-ATTATATCAT
1 TTTATATTAT-TCAT
1045213 ATTTATATTATT--T
1 -TTTATATTATTCAT
1045226 TTTATATTAT
1 TTTATATTAT
1045236 ATTATGTATA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
12 10 0.30
13 6 0.18
14 7 0.21
15 5 0.15
16 5 0.15
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (14 bp):
TTTATATTATTCAT
Found at i:1045245 original size:26 final size:27
Alignment explanation
Indices: 1045187--1045253 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 27
1045177 TATTTGTGTT
*
1045187 TATATTATTGATTTTAATTATATCATATT
1 TATATTATT-ATTTTAATTATAT-ATATG
1045216 TATATTATT-TTTTATATTATAT-TATG
1 TATATTATTATTTTA-ATTATATATATG
*
1045242 TATAATATTATT
1 TATATTATTATT
1045254 AAATTTAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
26 11 0.32
27 7 0.21
28 7 0.21
29 9 0.26
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.61
Consensus pattern (27 bp):
TATATTATTATTTTAATTATATATATG
Found at i:1050757 original size:155 final size:156
Alignment explanation
Indices: 1050577--1050873 Score: 388
Period size: 155 Copynumber: 1.9 Consensus size: 156
1050567 TCCTGTAACC
* * * * *
1050577 TTAAAGGACATGGAAATGATAAGTAAAAGGACAAACTTATCTTAATTGCACA-CATTTGGCATAA
1 TTAAAGGACACGAAAACGATAAGTAAAAGGACAAACTTATCTTAAATGCACATC-TTTGGCAAAA
* * * *
1050641 AAGTGACCTAG-TTACGACCTA-AGACTTGGTTCTAATGAAATTACGAAAATACCTTTG-GAGTA
65 AAGCGA-CTAGCTGACGACCTAGA-ACTTGGTTCTAAGGAAATTACAAAAATACCTTTGTG-GTA
*
1050703 TACCTT-GACGTGAAAGTATCTCGATGACT
127 TACCTTCAACGTGAAAGTATCTCGATGACT
**
1050732 TTAAAGGACACGAAAACGATAAGTAAAAGGATGAACTTATCTTAAATGCACATCTTTGGCAAAAA
1 TTAAAGGACACGAAAACGATAAGTAAAAGGACAAACTTATCTTAAATGCACATCTTTGGCAAAAA
* * *
1050797 AGCGACTTGCTGACGACCTAGAACTTGGTTCTAAGGAAATTGCAAAAATACTTTTGTGGTATACC
66 AGCGACTAGCTGACGACCTAGAACTTGGTTCTAAGGAAATTACAAAAATACCTTTGTGGTATACC
1050862 TTCAACGTGAAA
131 TTCAACGTGAAA
1050874 ATATTTTAGT
Statistics
Matches: 122, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
154 3 0.02
155 108 0.89
156 11 0.09
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (156 bp):
TTAAAGGACACGAAAACGATAAGTAAAAGGACAAACTTATCTTAAATGCACATCTTTGGCAAAAA
AGCGACTAGCTGACGACCTAGAACTTGGTTCTAAGGAAATTACAAAAATACCTTTGTGGTATACC
TTCAACGTGAAAGTATCTCGATGACT
Found at i:1063128 original size:20 final size:20
Alignment explanation
Indices: 1063085--1063130 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1063075 AAATCTTTTG
1063085 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1063106 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1063126 CAAAA
1 CAAAA
1063131 CCAGCGTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1069335 original size:17 final size:17
Alignment explanation
Indices: 1069294--1069341 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
1069284 TATTTTTTCT
*
1069294 TAAATAAATATTTACTC
1 TAAATAAATATATACTC
*
1069311 -AAATTAAATATATATTC
1 TAAA-TAAATATATACTC
1069328 TAAATAAATA-ATAC
1 TAAATAAATATATAC
1069342 AAAAATTATC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 6 0.23
17 17 0.65
18 3 0.12
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAATAAATATATACTC
Found at i:1071837 original size:20 final size:21
Alignment explanation
Indices: 1071812--1071864 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
1071802 TTATAAGCCA
*
1071812 ATGTATCGATACAAT-TTTTT
1 ATGTATCGATACAATACTTTT
1071832 ATGTATCGATAC-ATACTTTT
1 ATGTATCGATACAATACTTTT
1071852 -TGTATCGATACAA
1 ATGTATCGATACAA
1071865 GTTTGGCTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.43
Consensus pattern (21 bp):
ATGTATCGATACAATACTTTT
Found at i:1071920 original size:21 final size:21
Alignment explanation
Indices: 1071893--1071956 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 21
1071883 AATCCCAATG
1071893 ACATGTATCGATACATCTTTT
1 ACATGTATCGATACATCTTTT
* ***
1071914 TCATGTATCGATACAT-TGCA
1 ACATGTATCGATACATCTTTT
1071934 ACATGTATCGATACATCTTTT
1 ACATGTATCGATACATCTTTT
1071955 AC
1 AC
1071957 TAAAAAAATC
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
20 16 0.47
21 18 0.53
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (21 bp):
ACATGTATCGATACATCTTTT
Found at i:1073795 original size:13 final size:13
Alignment explanation
Indices: 1073777--1073801 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1073767 ATAACCCCCC
1073777 TGTATCGATACAG
1 TGTATCGATACAG
1073790 TGTATCGATACA
1 TGTATCGATACA
1073802 AAGAAAAATG
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:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1077443 original size:207 final size:207
Alignment explanation
Indices: 1077088--1077501 Score: 783
Period size: 207 Copynumber: 2.0 Consensus size: 207
1077078 CATTGACATA
*
1077088 TAAAACATTTTCAATGTAAAATGAAGAGATGTTACCAATGGTGCCGATTCCTTCAATTTTTCCTT
1 TAAAACATTTTCAATGTAAAATGAAGAGATGTTACCAATGGTACCGATTCCTTCAATTTTTCCTT
* *
1077153 TTGAATTATTGCCAAAGGTTACACATCCGCCTTCTTTTGATTTGACTTCCGAAAATAAGCTCTTG
66 TCGAATTATCGCCAAAGGTTACACATCCGCCTTCTTTTGATTTGACTTCCGAAAATAAGCTCTTG
1077218 TCCCCGGTCATATGCCTTGAGCATCCACTATCAAGGTACCAATAGTTCTTCTTTGATTCTTTTGC
131 TCCCCGGTCATATGCCTTGAGCATCCACTATCAAGGTACCAATAGTTCTTCTTTGATTCTTTTGC
1077283 CTTGTAGCAATG
196 CTTGTAGCAATG
*
1077295 TAAAACATTTTCAATGTAAAATGAAGAGATGTTACCAATGGTACCGATTCCTTCGATTTTTCCTT
1 TAAAACATTTTCAATGTAAAATGAAGAGATGTTACCAATGGTACCGATTCCTTCAATTTTTCCTT
1077360 TCGAATTATCGCCAAAGGTTACACATCCGCCTTCTTTTGATTTGACTTCCGAAAATAAGCTCTTG
66 TCGAATTATCGCCAAAGGTTACACATCCGCCTTCTTTTGATTTGACTTCCGAAAATAAGCTCTTG
1077425 TCCCCGGTCATATGCCTTGAGCATCCACTATCAAGGTACCAATAGTTCTTCTTTGATTCTTTTGC
131 TCCCCGGTCATATGCCTTGAGCATCCACTATCAAGGTACCAATAGTTCTTCTTTGATTCTTTTGC
*
1077490 CTTTTAGCAATG
196 CTTGTAGCAATG
1077502 CTCCACCTCC
Statistics
Matches: 202, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
207 202 1.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.36
Consensus pattern (207 bp):
TAAAACATTTTCAATGTAAAATGAAGAGATGTTACCAATGGTACCGATTCCTTCAATTTTTCCTT
TCGAATTATCGCCAAAGGTTACACATCCGCCTTCTTTTGATTTGACTTCCGAAAATAAGCTCTTG
TCCCCGGTCATATGCCTTGAGCATCCACTATCAAGGTACCAATAGTTCTTCTTTGATTCTTTTGC
CTTGTAGCAATG
Found at i:1080135 original size:13 final size:13
Alignment explanation
Indices: 1080117--1080142 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1080107 CAATTTTTTG
1080117 TGTATCGATACAT
1 TGTATCGATACAT
1080130 TGTATCGATACAT
1 TGTATCGATACAT
1080143 ACTTTGTGTA
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:1080154 original size:32 final size:33
Alignment explanation
Indices: 1080097--1080160 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1080087 TACAAGCCAA
**
1080097 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
1080130 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
1080161 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:1080237 original size:20 final size:20
Alignment explanation
Indices: 1080212--1080264 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
1080202 ACATCTTTTT
1080212 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
1080232 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
1080252 CATGTATCGATAC
1 CATGTATCGATAC
1080265 TTTGAATTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:1080926 original size:31 final size:31
Alignment explanation
Indices: 1080891--1080954 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
1080881 GACAATCTTG
1080891 TCTACGTATGAAGTTTAAGACAAAGCTATCA
1 TCTACGTATGAAGTTTAAGACAAAGCTATCA
1080922 TCTACGTATGAAGTTTAAGACAAAGCTATCA
1 TCTACGTATGAAGTTTAAGACAAAGCTATCA
1080953 TC
1 TC
1080955 CTGTTCTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.30
Consensus pattern (31 bp):
TCTACGTATGAAGTTTAAGACAAAGCTATCA
Found at i:1086628 original size:87 final size:87
Alignment explanation
Indices: 1086482--1086658 Score: 309
Period size: 87 Copynumber: 2.0 Consensus size: 87
1086472 CAACACTCCA
* *
1086482 ATACCCTATCATCAAGAAATGCTTGATCATTTAGCTGAGCTCGTGAGCCTTCTCCCGTAATGTCC
1 ATACCCTATCATCAAGAAATGCTTGATCATTTAGCTGAGCTCGTGAGACTTCTCCCGTAATGTCA
*
1086547 ATCATAAAAACCGCAAATGCGT
66 ATCATAAAAACCGCAAATGCAT
* *
1086569 ATACCCTATCATGAAGAAATGCTTGATCATTTAGCTGAGCTCGTGAGACTTTTCCCGTAATGTCA
1 ATACCCTATCATCAAGAAATGCTTGATCATTTAGCTGAGCTCGTGAGACTTCTCCCGTAATGTCA
1086634 ATCATAAAAACCGCAAATGCAT
66 ATCATAAAAACCGCAAATGCAT
1086656 ATA
1 ATA
1086659 GATCAGTGCT
Statistics
Matches: 85, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 85 1.00
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (87 bp):
ATACCCTATCATCAAGAAATGCTTGATCATTTAGCTGAGCTCGTGAGACTTCTCCCGTAATGTCA
ATCATAAAAACCGCAAATGCAT
Found at i:1086761 original size:102 final size:102
Alignment explanation
Indices: 1086582--1086787 Score: 322
Period size: 102 Copynumber: 2.0 Consensus size: 102
1086572 CCCTATCATG
* * *
1086582 AAGAAATGCTTGATCATTTAGCTGAGCTCGTGAGACTTTTCCCGTAATGTCAATCATAAAAACCG
1 AAGAAATACTTGATCATTTAGCTGAGCTCGTAAGACTTCTCCCGTAATGTCAATCATAAAAACCG
*
1086647 CAAATGCATATAGATCAGTGCTTGTAGTTGCTTTTCC
66 CAAACGCATATAGATCAGTGCTTGTAGTTGCTTTTCC
* * *
1086684 AAGAAATACTTGATCATTTAGCTGAGTTTGTAAGCCTTCTCCCGTAATGTCAATCATAAAAACCG
1 AAGAAATACTTGATCATTTAGCTGAGCTCGTAAGACTTCTCCCGTAATGTCAATCATAAAAACCG
** *
1086749 CAAACGTGTATAGATCAGTGCTTGTATTTGCTTTTCC
66 CAAACGCATATAGATCAGTGCTTGTAGTTGCTTTTCC
1086786 AA
1 AA
1086788 TTTCTCCAAG
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
102 94 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.33
Consensus pattern (102 bp):
AAGAAATACTTGATCATTTAGCTGAGCTCGTAAGACTTCTCCCGTAATGTCAATCATAAAAACCG
CAAACGCATATAGATCAGTGCTTGTAGTTGCTTTTCC
Found at i:1088702 original size:121 final size:121
Alignment explanation
Indices: 1088559--1088803 Score: 481
Period size: 121 Copynumber: 2.0 Consensus size: 121
1088549 ACTCTGGGTT
1088559 TTGGGTTACCAAAAGGAGGCCAGGGAGTCAATGAGAATATTAAGTATCCATCTTCAACGATAGTT
1 TTGGGTTACCAAAAGGAGGCCAGGGAGTCAATGAGAATATTAAGTATCCATCTTCAACGATAGTT
1088624 ATTTTGCTGATTGCTTAAAACATGAACACAATGAGGTTCCAAATTATGGGCATATG
66 ATTTTGCTGATTGCTTAAAACATGAACACAATGAGGTTCCAAATTATGGGCATATG
*
1088680 TTGGGTTACCAAAAGGAGGCCAGGGAGTCAGTGAGAATATTAAGTATCCATCTTCAACGATAGTT
1 TTGGGTTACCAAAAGGAGGCCAGGGAGTCAATGAGAATATTAAGTATCCATCTTCAACGATAGTT
1088745 ATTTTGCTGATTGCTTAAAACATGAACACAATGAGGTTCCAAATTATGGGCATATG
66 ATTTTGCTGATTGCTTAAAACATGAACACAATGAGGTTCCAAATTATGGGCATATG
1088801 TTG
1 TTG
1088804 CTTTCACGGA
Statistics
Matches: 123, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
121 123 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (121 bp):
TTGGGTTACCAAAAGGAGGCCAGGGAGTCAATGAGAATATTAAGTATCCATCTTCAACGATAGTT
ATTTTGCTGATTGCTTAAAACATGAACACAATGAGGTTCCAAATTATGGGCATATG
Found at i:1090142 original size:2 final size:2
Alignment explanation
Indices: 1090135--1090160 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1090125 TGAATCCAAA
1090135 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
1090161 TGGGAAATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1090568 original size:20 final size:20
Alignment explanation
Indices: 1090543--1090580 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1090533 TTTAACTCTC
*
1090543 TCATATTTTATTTTTTTATT
1 TCATATTTTAATTTTTTATT
1090563 TCATATTTTAATTTTTTA
1 TCATATTTTAATTTTTTA
1090581 ATTAAAGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (20 bp):
TCATATTTTAATTTTTTATT
Found at i:1090684 original size:2 final size:2
Alignment explanation
Indices: 1090677--1090708 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1090667 TAAAACATTT
1090677 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1090709 GAACGATGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1097415 original size:85 final size:85
Alignment explanation
Indices: 1097325--1097498 Score: 321
Period size: 85 Copynumber: 2.0 Consensus size: 85
1097315 TCAATATTTT
* *
1097325 ATTTTTATTCGTAATATTATATTTATCATTCATAATTTGTATTAATATTATTTTCGTCCATTATT
1 ATTTTTATTCGTAATATTATATTTATCATTCATAATTTATATTAATATTATTTTCATCCATTATT
1097390 TTTAAAAATTACAATTATTC
66 TTTAAAAATTACAATTATTC
1097410 ATTTTTATTCGTAATATTATATTTATCATTCATAATTTATATTAATATTATTTTCATCCATTATT
1 ATTTTTATTCGTAATATTATATTTATCATTCATAATTTATATTAATATTATTTTCATCCATTATT
*
1097475 TTTAAAAATTATAATTATTC
66 TTTAAAAATTACAATTATTC
1097495 ATTT
1 ATTT
1097499 ATGATTATTA
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 86 1.00
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (85 bp):
ATTTTTATTCGTAATATTATATTTATCATTCATAATTTATATTAATATTATTTTCATCCATTATT
TTTAAAAATTACAATTATTC
Found at i:1105412 original size:13 final size:13
Alignment explanation
Indices: 1105394--1105430 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
1105384 TTCCAGAATG
1105394 TATCGATACATTA
1 TATCGATACATTA
* *
1105407 TATCGATACAATG
1 TATCGATACATTA
1105420 TATCGATACAT
1 TATCGATACAT
1105431 GAGTTACTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:1106130 original size:33 final size:33
Alignment explanation
Indices: 1106088--1106187 Score: 191
Period size: 33 Copynumber: 3.0 Consensus size: 33
1106078 CGAGAGTTGA
1106088 TCACTTCACTTTCGCAGCGCATGGATGAGCACT
1 TCACTTCACTTTCGCAGCGCATGGATGAGCACT
*
1106121 TCACTTCACTTTCGCAGTGCATGGATGAGCACT
1 TCACTTCACTTTCGCAGCGCATGGATGAGCACT
1106154 TCACTTCACTTTCGCAGCGCATGGATGAGCACT
1 TCACTTCACTTTCGCAGCGCATGGATGAGCACT
1106187 T
1 T
1106188 TAGTTCTTTT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 65 1.00
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (33 bp):
TCACTTCACTTTCGCAGCGCATGGATGAGCACT
Found at i:1107163 original size:20 final size:20
Alignment explanation
Indices: 1107137--1107190 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
1107127 CTACCACTGT
*
1107137 TTGTATCGATACATGGCACAA
1 TTGTATCGATACAT-GAACAA
*
1107158 -TGTATCGATACATGAAGAA
1 TTGTATCGATACATGAACAA
1107177 TTGTATCGATACAT
1 TTGTATCGATACAT
1107191 TGCCTCAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 4 0.13
20 26 0.87
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (20 bp):
TTGTATCGATACATGAACAA
Found at i:1110243 original size:22 final size:22
Alignment explanation
Indices: 1110188--1110243 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
1110178 ACAGTGACCT
1110188 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
1110210 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
1110231 ATGAACAGTGATG
1 ATGAACAGTGATG
1110244 AATAGTGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.27
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:1110250 original size:10 final size:10
Alignment explanation
Indices: 1110231--1110261 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1110221 GTATCGATAC
1110231 ATGAACAGTG
1 ATGAACAGTG
*
1110241 ATGAATAGTG
1 ATGAACAGTG
1110251 ATGAACAGTG
1 ATGAACAGTG
1110261 A
1 A
1110262 AAATGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:1110361 original size:53 final size:53
Alignment explanation
Indices: 1110285--1110421 Score: 202
Period size: 53 Copynumber: 2.6 Consensus size: 53
1110275 CTACTACCAA
* * * * *
1110285 TGTATCGATATATGTTTTATGTATCGATACAATTTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
1110338 TGTATCGATACATATTGTGTGTATCAATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1110391 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATA-TTGTGTGTATCGATAC
1110422 TATGCAATCT
Statistics
Matches: 75, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
53 60 0.80
54 15 0.20
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.39
Consensus pattern (53 bp):
TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:1110454 original size:20 final size:20
Alignment explanation
Indices: 1110391--1110461 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
1110381 GCCAATGTCC
**
1110391 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
1110411 TGTATCGATAC-TATGCAATC
1 TGTATCGATACATAT-TAATG
1110431 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
1110451 TGTATCGATAC
1 TGTATCGATAC
1110462 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:1110525 original size:21 final size:21
Alignment explanation
Indices: 1110501--1110541 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1110491 GTCAACCTTG
1110501 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
1110522 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
1110542 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:1121183 original size:19 final size:19
Alignment explanation
Indices: 1121136--1121191 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
1121126 CTGCCAGTTT
**
1121136 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAA
1121156 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
1121175 CATGAATCGATACAATG
1 CATGTATCGATACAATG
1121192 TATCAATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1125158 original size:23 final size:23
Alignment explanation
Indices: 1125109--1125188 Score: 67
Period size: 23 Copynumber: 3.5 Consensus size: 23
1125099 TAAAAATTAT
*
1125109 TAAAAT-TAAATTATAT-TAAATAA
1 TAAAATATAAATTATATCT--ATGA
* * *
1125132 TAAAATATAAATTATATTTTTGT
1 TAAAATATAAATTATATCTATGA
* *
1125155 TAAATTAAAAATTATATCTATGA
1 TAAAATATAAATTATATCTATGA
1125178 TAAAA-ATAAAT
1 TAAAATATAAAT
1125189 AAATAAAATT
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
22 5 0.11
23 29 0.64
24 10 0.22
25 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (23 bp):
TAAAATATAAATTATATCTATGA
Found at i:1126029 original size:149 final size:147
Alignment explanation
Indices: 1125712--1126391 Score: 622
Period size: 149 Copynumber: 4.6 Consensus size: 147
1125702 GGGGTTACAA
* * * * * *
1125712 GACTAAGTTTTGGGGAAAAATACTAAAAGGTCTCTAAGGTCTACCATTGACTTGGAAGTGCCTGA
1 GACTAGGTTTCGGGG-AAAATGCTAAAAGGTCCCTAAGGTCTACCATCGACTTAGAAGTGCCTGA
* * * * * **
1125777 TGATCATACA-GGACTTGAAAAAGTAAAAGCGAACCTAGGCCTAATACATACCTTTGACATAGAA
65 TGATCCTA-AGGGACTTGAAAAAGTAAAAACAAACCTACGCCTAATACATACCTTCGATGTAGAA
* *
1125841 GCGACCTAGTAGTTTTATAG
129 GCGACCGA-TAGTCTTATAG
* * * ** * * *
1125861 GA-TAATGTTTCGAGAGAAAATACTAAAATATCCCTAAGGTTTACCATTGACTTAGAGGTGCCTG
1 GACT-AGGTTTCG-GGGAAAATGCTAAAAGGTCCCTAAGGTCTACCATCGACTTAGAAGTGCCTG
* * *
1125925 GTGATCCTAAGGGACTTGAAAAAGTAAAAACAAACCTACTCCTAATTCATACCTTCGATGTAGAA
64 ATGATCCTAAGGGACTTGAAAAAGTAAAAACAAACCTACGCCTAATACATACCTTCGATGTAGAA
1125990 GCGATCCCGATAGTCTTATAG
129 GCGA--CCGATAGTCTTATAG
* * * * * * *
1126011 GATTAGGTTTTGGGGAAAAATGCTAACAGGTCCTTAAGGTCTACCATCGACCTAGAAATGCCAGA
1 GACTAGGTTTCGGGG-AAAATGCTAAAAGGTCCCTAAGGTCTACCATCGACTTAGAAGTGCCTGA
** * *
1126076 TGATCCT-AGAGGACTTGAAAAAGTAAAAGTGAAA-CTACGCCTAATACCTACCCTTGGCA--TA
65 TGATCCTAAG-GGACTTGAAAAAGTAAAA-ACAAACCTACGCCTAATACATA-CCTTCG-ATGTA
* * * * *
1126137 AAAGTGACTTGGTAGTTTTATAG
126 GAAGCGAC-CGATAGTCTTATAG
* * * *
1126160 AACTAGGTTTCGGGG-AAATGTTAAAAGGTCCCTAAGGTCTAACATCGACTTAGAAGTG-CTCGG
1 GACTAGGTTTCGGGGAAAATGCTAAAAGGTCCCTAAGGTCTACCATCGACTTAGAAGTGCCT-GA
* * * * *
1126223 TGATCC-AAGGGACTTTAAAAAGTAAAAACAAACCCACTCCTAATTCATACCTTCGGTGTAGAAG
65 TGATCCTAAGGGACTTGAAAAAGTAAAAACAAACCTACGCCTAATACATACCTTCGATGTAGAAG
*
1126287 CGGATCCGGTAGTCTTATAG
130 C-GA-CCGATAGTCTTATAG
* ** * * *
1126307 GACTAGGTTTCGAGGAAAATGCTAAAATATCCCTAAGGTTTACCATCGACTTAGAAGTACCTGTT
1 GACTAGGTTTCGGGGAAAATGCTAAAAGGTCCCTAAGGTCTACCATCGACTTAGAAGTGCCTGAT
*
1126372 GATCCTAAGAGACTTGAAAA
66 GATCCTAAGGGACTTGAAAA
1126392 GGGCCATAAA
Statistics
Matches: 427, Mismatches: 82, Indels: 44
0.77 0.15 0.08
Matches are distributed among these distances:
145 8 0.02
146 35 0.08
147 73 0.17
148 48 0.11
149 148 0.35
150 102 0.24
151 12 0.03
152 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (147 bp):
GACTAGGTTTCGGGGAAAATGCTAAAAGGTCCCTAAGGTCTACCATCGACTTAGAAGTGCCTGAT
GATCCTAAGGGACTTGAAAAAGTAAAAACAAACCTACGCCTAATACATACCTTCGATGTAGAAGC
GACCGATAGTCTTATAG
Found at i:1126922 original size:165 final size:163
Alignment explanation
Indices: 1126650--1127034 Score: 458
Period size: 165 Copynumber: 2.3 Consensus size: 163
1126640 AAAGGATGCA
* * * *
1126650 AAAAGTTTAAAAAAATTTCTATATCCTTATGGAAGGCCATAGGAATAATAAAAATCTAAAAAATA
1 AAAAGTTT-TAAAAATTTCTATACCCCTATGGAAGACCATAGGAATAATAAAAATCTAAAAAATA
* * * * *
1126715 TGACTAAGATTATTTTTCTTCTAAAATCCAAATTGGCTATTTAGTCTCTGAACTTTTCAAAATTT
65 TGACTAAGATTATTTTTCTTCTAAAAACCAAATTGACTATTTAGTCCCTAAACTTTTAAAAATTT
* *
1126780 TATTTCATA-CTTGAGGAAAAA-TCGAGAGGATATG
130 TATTTCATATC-TGACGAAAAACT-GAGAAGATATG
* * * *
1126814 AAAAGTTTTAAAAATTT-TCATACCCCTATGGATGACCGTAGGAATAAT-AGAATTTAAATAAA-
1 AAAAGTTTTAAAAATTTCT-ATACCCCTATGGAAGACCATAGGAATAATAAAAATCTAAA-AAAT
* *
1126876 ATGACTAAGATAGCTATTTTTCTTCTAAAAACTAAATTTACTATTTAGTCCCTAAACTTTTAAAA
64 ATGACTAAGAT---TATTTTTCTTCTAAAAACCAAATTGACTATTTAGTCCCTAAACTTTTAAAA
*
1126941 ATTTTATTTCATATCTGACGAACAACTGAGAAGATATG
126 ATTTTATTTCATATCTGACGAAAAACTGAGAAGATATG
* * *
1126979 AAAAGTTTTAAAAATTTCTATACCCCTACGAAAGGCTC-TAGGAATAATAAAAATCT
1 AAAAGTTTTAAAAATTTCTATACCCCTATGGAAGAC-CATAGGAATAATAAAAATCT
1127035 TTAAAAATGC
Statistics
Matches: 187, Mismatches: 24, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
162 20 0.11
163 35 0.19
164 8 0.04
165 115 0.61
166 9 0.05
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (163 bp):
AAAAGTTTTAAAAATTTCTATACCCCTATGGAAGACCATAGGAATAATAAAAATCTAAAAAATAT
GACTAAGATTATTTTTCTTCTAAAAACCAAATTGACTATTTAGTCCCTAAACTTTTAAAAATTTT
ATTTCATATCTGACGAAAAACTGAGAAGATATG
Found at i:1127070 original size:165 final size:165
Alignment explanation
Indices: 1126751--1127076 Score: 360
Period size: 165 Copynumber: 2.0 Consensus size: 165
1126741 TCCAAATTGG
* * * * *
1126751 CTATTTAGTCTCTGAACTTTTCAAAATTTTATTTCATACTTGAGGAAAAATCGAGAGGATATGAA
1 CTATTTAGTCCCTAAACTTTTAAAAATTTTATTTCATACTTGACGAAAAATCGAGAAGATATGAA
* * * *
1126816 AAGTTTTAAAAATTTTCATACCCCTATGGATGACCGTAGGAATAATAGAATTTAAATAAAATGAC
66 AAGTTTTAAAAATTTTCATACCCCTACGAAAGACCGTAGGAATAATAAAATTTAAATAAAATGAC
* * * ** *
1126881 TAAGATAGCTATTTTTCTTCTAAAAACTAAATTTA
131 GAAAATAGATATTTCACCTCTAAAAACTAAATTTA
*
1126916 CTATTTAGTCCCTAAACTTTTAAAAATTTTATTTCATA-TCTGACGAACAA-CTGAGAAGATATG
1 CTATTTAGTCCCTAAACTTTTAAAAATTTTATTTCATACT-TGACGAAAAATC-GAGAAGATATG
* *
1126979 AAAAGTTTTAAAAA-TTTCTATACCCCTACGAAAGGCTC-TAGGAATAATAAAAATCTT-TA-AA
64 AAAAGTTTTAAAAATTTTC-ATACCCCTACGAAAGAC-CGTAGGAATAAT-AAAAT-TTAAATAA
* *
1127040 AATGCCGAAAAT-GATGATTTCACCTCTAAAAATTAAA
125 AATGACGAAAATAGAT-ATTTCACCTCTAAAAACTAAA
1127077 ACTTGTTATT
Statistics
Matches: 134, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
164 8 0.06
165 118 0.88
166 6 0.04
167 2 0.01
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.34
Consensus pattern (165 bp):
CTATTTAGTCCCTAAACTTTTAAAAATTTTATTTCATACTTGACGAAAAATCGAGAAGATATGAA
AAGTTTTAAAAATTTTCATACCCCTACGAAAGACCGTAGGAATAATAAAATTTAAATAAAATGAC
GAAAATAGATATTTCACCTCTAAAAACTAAATTTA
Found at i:1129489 original size:86 final size:86
Alignment explanation
Indices: 1129316--1129487 Score: 301
Period size: 86 Copynumber: 2.0 Consensus size: 86
1129306 CCGTGATATC
*
1129316 ATCCACAGAGATAATTTTCAAAAATTAACAAGAAATTATTTAAAAACAAAATTCTTCATTTGCAG
1 ATCCACAAAGATAATTTTCAAAAATTAACAAGAAATTATTTAAAAACAAAATTCTTCATTTGCAG
1129381 ATTCGTCATTTATCCTAGAAA
66 ATTCGTCATTTATCCTAGAAA
* * *
1129402 ATCCACAAAGATAATTTTCAAAATTTAACAAGAAATTATTTAAAAAC-AAGTTCTTCCTTTGCAG
1 ATCCACAAAGATAATTTTCAAAAATTAACAAGAAATTATTTAAAAACAAAATTCTTCATTTGCAG
1129466 ATTCGTCATTTATCCTAGAAA
66 ATTCGTCATTTATCCTAGAAA
1129487 A
1 A
1129488 ATAGATTTTT
Statistics
Matches: 82, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
85 37 0.45
86 45 0.55
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.33
Consensus pattern (86 bp):
ATCCACAAAGATAATTTTCAAAAATTAACAAGAAATTATTTAAAAACAAAATTCTTCATTTGCAG
ATTCGTCATTTATCCTAGAAA
Done.