Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold103
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: 2633873
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 16636 characters in sequence are not A, C, G, or T
File 10 of 21
Found at i:986032 original size:13 final size:13
Alignment explanation
Indices: 986005--986050 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 13
985995 AACAAATCTG
*
986005 AAAATA-TTAATT
1 AAAATATTTAAAT
986017 AAAATATTTAAAT
1 AAAATATTTAAAT
986030 -AAATATTTAAA-
1 AAAATATTTAAAT
*
986041 ATAATATTTA
1 AAAATATTTA
986051 TTACAATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 25 0.83
13 5 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AAAATATTTAAAT
Found at i:986368 original size:2 final size:2
Alignment explanation
Indices: 986361--986389 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
986351 AAATGCATAC
986361 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 A
986390 AACTCAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:986720 original size:5 final size:5
Alignment explanation
Indices: 986710--986749 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
986700 AAGTTTTTTT
986710 AATTA AATTA AATTA AATTA AATTAA AATTTA AA-TA AATT
1 AATTA AATTA AATTA AATTA AATT-A AA-TTA AATTA AATT
986750 TTTTCTTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
4 4 0.12
5 20 0.62
6 6 0.19
7 2 0.06
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATTA
Found at i:987907 original size:22 final size:22
Alignment explanation
Indices: 987879--987931 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
987869 TAATAAAATA
*
987879 TTTTATATTAATATTTATATAT
1 TTTTATATTAAAATTTATATAT
*
987901 TTTTATAATAAAATTTATATAT
1 TTTTATATTAAAATTTATATAT
**
987923 AATTATATT
1 TTTTATATT
987932 CATAATATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TTTTATATTAAAATTTATATAT
Found at i:988398 original size:24 final size:24
Alignment explanation
Indices: 988371--988416 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
988361 ATCATAATCT
* *
988371 ATTTATTTATATTATATTTATAAA
1 ATTTATTTATAATATAATTATAAA
*
988395 ATTTCTTTATAATATAATTATA
1 ATTTATTTATAATATAATTATA
988417 TTTATTTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
ATTTATTTATAATATAATTATAAA
Found at i:988469 original size:12 final size:13
Alignment explanation
Indices: 988434--988467 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
988424 TAAAATAAAA
988434 AATTAATTTTAAT
1 AATTAATTTTAAT
*
988447 -ATAAATTTTAAT
1 AATTAATTTTAAT
988459 AATTAATTT
1 AATTAATTT
988468 AAAATAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
AATTAATTTTAAT
Found at i:988537 original size:22 final size:19
Alignment explanation
Indices: 988504--988553 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 19
988494 TTTATTTAAA
988504 TTTAATTATAAAATATATAAAT
1 TTTAA-TATAAAA-ATA-AAAT
*
988526 TATTAATATAAAAATAATAT
1 T-TTAATATAAAAATAAAAT
988546 TTTAATAT
1 TTTAATAT
988554 TTTTAAACAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 7 0.27
20 4 0.15
21 3 0.12
22 8 0.31
23 4 0.15
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTAATATAAAAATAAAAT
Found at i:989387 original size:28 final size:30
Alignment explanation
Indices: 989327--989396 Score: 74
Period size: 28 Copynumber: 2.4 Consensus size: 30
989317 TCTTTAAAAC
* * *
989327 TAAATATAAATAATTTTATTTATTAATAAA
1 TAAATTTATATAATTTTATTTATCAATAAA
*
989357 T-AATATTATATAA-TTTA-TTATCAATATA
1 TAAAT-TTATATAATTTTATTTATCAATAAA
989385 TAAATTTATATA
1 TAAATTTATATA
989397 CTGATAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
28 17 0.50
29 10 0.29
30 7 0.21
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (30 bp):
TAAATTTATATAATTTTATTTATCAATAAA
Found at i:989577 original size:15 final size:16
Alignment explanation
Indices: 989551--989580 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
989541 CAATAATAAA
989551 TAAAATTTAAATTTAT
1 TAAAATTTAAATTTAT
989567 TAAAA-TTAAATTTA
1 TAAAATTTAAATTTA
989581 AATAATTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TAAAATTTAAATTTAT
Found at i:990275 original size:20 final size:18
Alignment explanation
Indices: 990233--990275 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
990223 TTAGATTGAA
990233 TTTATATATAATATTAAT
1 TTTATATATAATATTAAT
* *
990251 ATTATATATATTTATTTAAT
1 TTTATATATA-ATA-TTAAT
990271 TTTAT
1 TTTAT
990276 TTTAATCTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 9 0.45
19 2 0.10
20 9 0.45
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTATATATAATATTAAT
Found at i:991293 original size:21 final size:20
Alignment explanation
Indices: 991248--991289 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
991238 ATATCATATA
991248 TATAAAATTTATTTATGAAT
1 TATAAAATTTATTTATGAAT
991268 TATAAAATTATATTTAT-AAT
1 TATAAAATT-TATTTATGAAT
991288 TA
1 TA
991290 ATAATTAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
TATAAAATTTATTTATGAAT
Found at i:992546 original size:38 final size:34
Alignment explanation
Indices: 992475--992583 Score: 105
Period size: 33 Copynumber: 3.1 Consensus size: 34
992465 TTACTTATAA
** * *
992475 AATAAAAAATTTTTAAGGATAAAAAGATAAAAAAT
1 AATAAAAAATTTTTAA-TTTAAAAATATTAAAAAT
992510 AATAAAAAATTTATCTTAAATTTAAAAATATTAAAAAT
1 AATAAAAAA-TT-T-TT-AATTTAAAAATATTAAAAAT
* *
992548 AA-AAAATATTTTTAATTTAATAATATTAAAAA-
1 AATAAAAAATTTTTAATTTAAAAATATTAAAAAT
992580 AATA
1 AATA
992584 TTGTCTCAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
32 2 0.03
33 19 0.30
34 2 0.03
35 10 0.16
36 4 0.06
37 6 0.10
38 18 0.29
39 2 0.03
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (34 bp):
AATAAAAAATTTTTAATTTAAAAATATTAAAAAT
Found at i:996416 original size:3 final size:3
Alignment explanation
Indices: 996404--996444 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
996394 TATAAGCGAG
*
996404 ATT A-T ATT ATT ATT AGT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
996445 TTGTGACAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:998358 original size:15 final size:15
Alignment explanation
Indices: 998335--998369 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
998325 TTTTCTTATC
*
998335 ATTTTTATCTCGTAA
1 ATTTCTATCTCGTAA
*
998350 ATTTCTATCTCGTAG
1 ATTTCTATCTCGTAA
998365 ATTTC
1 ATTTC
998370 GTAGATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.23, C:0.17, G:0.09, T:0.51
Consensus pattern (15 bp):
ATTTCTATCTCGTAA
Found at i:999875 original size:21 final size:21
Alignment explanation
Indices: 999825--999864 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
999815 ATGATGAAAA
*
999825 TAAGATTAATTATTATAATAG
1 TAAGATTAAGTATTATAATAG
999846 TAAGATTAAGTATTATAAT
1 TAAGATTAAGTATTATAAT
999865 GATGTAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.42
Consensus pattern (21 bp):
TAAGATTAAGTATTATAATAG
Found at i:1000915 original size:10 final size:10
Alignment explanation
Indices: 1000900--1000932 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
1000890 AATTACTATC
1000900 TAAAATATAT
1 TAAAATATAT
1000910 TAAAATAT-T
1 TAAAATATAT
1000919 TACAAATATAT
1 TA-AAATATAT
1000930 TAA
1 TAA
1000933 TAATTATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 3 0.14
10 15 0.71
11 3 0.14
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (10 bp):
TAAAATATAT
Found at i:1001709 original size:20 final size:19
Alignment explanation
Indices: 1001671--1001714 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
1001661 GTGTAAATAA
1001671 TAATTAAATATATTAGATT
1 TAATTAAATATATTAGATT
* *
1001690 TAATTATATGATATTTGATT
1 TAATTAAAT-ATATTAGATT
1001710 TAATT
1 TAATT
1001715 TCTATTTAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (19 bp):
TAATTAAATATATTAGATT
Found at i:1002700 original size:23 final size:22
Alignment explanation
Indices: 1002667--1002727 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 22
1002657 AAATAATAAA
*
1002667 TTTATTTATTTATTTTTATATATT
1 TTTA-TTATTTATTTTTAAAT-TT
*
1002691 TTTATTATTTAAATTTTAAATTT
1 TTTATTATTT-ATTTTTAAATTT
*
1002714 TTTAATATTATATT
1 TTTATTATT-TATT
1002728 AAAAATTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
23 18 0.58
24 13 0.42
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTATTATTTATTTTTAAATTT
Found at i:1002991 original size:16 final size:16
Alignment explanation
Indices: 1002972--1003050 Score: 59
Period size: 16 Copynumber: 4.6 Consensus size: 16
1002962 TATATATTTT
1002972 TTTATTTTTATAATTA
1 TTTATTTTTATAATTA
*
1002988 TTTATTATATGTATTATTTA
1 TTTATT-T-T-TA-TAATTA
* * * *
1003008 TTTAATATTAAAATAA
1 TTTATTTTTATAATTA
*
1003024 TTTATTTTTATATTTAA
1 TTTATTTTTATAATT-A
1003041 TTTATTTTTA
1 TTTATTTTTA
1003051 GTTGAATTGA
Statistics
Matches: 47, Mismatches: 11, Indels: 9
0.70 0.16 0.13
Matches are distributed among these distances:
16 19 0.40
17 14 0.30
18 2 0.04
19 2 0.04
20 10 0.21
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (16 bp):
TTTATTTTTATAATTA
Found at i:1003637 original size:97 final size:97
Alignment explanation
Indices: 1003459--1003644 Score: 228
Period size: 97 Copynumber: 1.9 Consensus size: 97
1003449 GCTCGATCCG
** * * * * *
1003459 ATTTATTTTTTAATTATATAATATGTATTAATTTTATATTTTATATATTAAATATTTTTTATCAT
1 ATTTATTTTACAATTATATAATATATATTAATTTTATATCTTATATACTAAATAATTTATATCAT
*
1003524 ATTAAAATACATATATATAATAGCTCGGATCA
66 ATAAAAATACATATATATAATAGCTCGGATCA
* * **
1003556 ATTTATTTTACAATTATGTAATATATTTTAATTTTATACTCTTATATACTAGGTAATTTATATCA
1 ATTTATTTTACAATTATATAATATATATTAATTTTATA-TCTTATATACTAAATAATTTATATCA
* *
1003621 TATAAAAAATAAATATATCTAATA
65 TAT-AAAAATACATATATATAATA
1003645 TTATAGTATA
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
97 33 0.45
98 23 0.32
99 17 0.23
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (97 bp):
ATTTATTTTACAATTATATAATATATATTAATTTTATATCTTATATACTAAATAATTTATATCAT
ATAAAAATACATATATATAATAGCTCGGATCA
Found at i:1003725 original size:15 final size:15
Alignment explanation
Indices: 1003705--1003737 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1003695 AATAAGAGAA
1003705 AAATATTAAATTATT
1 AAATATTAAATTATT
*
1003720 AAATATTAAATTTTT
1 AAATATTAAATTATT
1003735 AAA
1 AAA
1003738 AAATATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AAATATTAAATTATT
Found at i:1006603 original size:154 final size:153
Alignment explanation
Indices: 1006211--1006606 Score: 440
Period size: 150 Copynumber: 2.6 Consensus size: 153
1006201 TGAATAATTT
* * * * * *
1006211 TAGTATTGAAATAAAAAGAATCATTTTTTTATTATATTACTATAATTATCCAGTCATCTTCAAGA
1 TAGTATTG-AATAAAAATAATTA-TTTTTTATTATATTATTATAATTATCTAATCATATTCAAGA
* * * ** * * * *
1006276 ATTTTTTAATAGTTTATCTCTTATAAGTGTAGGTTCTACATAATATTTTGATAGGTCTTTACAAA
64 ATTTTGTAAAAGTTCATCTCTTATAAGCATAGATCCTACATAATATCTTGATAGGTCCTTACAAA
* *
1006341 AATCTTGGATACGATTAGATAATTG
129 AATCTTGAATACGATTAGATAAGTG
* * ** * *
1006366 TAGTATTGAAT--TAAT--TTTTTTTTTAAAAGTAATATTATAATTATCTAATCATATTCAAAAA
1 TAGTATTGAATAAAAATAATTATTTTTTATTA-TATTATTATAATTATCTAATCATATTCAAGAA
* * *
1006427 TTTTGTAAAAGTTCATCACTTATAAGCATTGATCCTACATAATATCTTGATGGGTCCTTACAAAA
65 TTTTGTAAAAGTTCATCTCTTATAAGCATAGATCCTACATAATATCTTGATAGGTCCTTACAAAA
** *
1006492 ATCTTGAATGTGATTAGATGAGTG
130 ATCTTGAATACGATTAGATAAGTG
* * *
1006516 TAGTATTGAAGTAAAAATAATTATTTTTTATTACATTATTATAATTATCTAATTATATTTAAGAA
1 TAGTATTGAA-TAAAAATAATTATTTTTTATTATATTATTATAATTATCTAATCATATTCAAGAA
1006581 TTTTGTAAAAGTTCATCTCTTATAAG
65 TTTTGTAAAAGTTCATCTCTTATAAG
1006607 TGTGGGTGTT
Statistics
Matches: 196, Mismatches: 39, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
149 8 0.04
150 109 0.56
151 1 0.01
152 2 0.01
153 3 0.02
154 55 0.28
155 18 0.09
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (153 bp):
TAGTATTGAATAAAAATAATTATTTTTTATTATATTATTATAATTATCTAATCATATTCAAGAAT
TTTGTAAAAGTTCATCTCTTATAAGCATAGATCCTACATAATATCTTGATAGGTCCTTACAAAAA
TCTTGAATACGATTAGATAAGTG
Found at i:1007013 original size:151 final size:152
Alignment explanation
Indices: 1006647--1007427 Score: 531
Period size: 153 Copynumber: 5.2 Consensus size: 152
1006637 AATATTATTG
* * * *
1006647 GGTAATTATAGTATTGAAGTAAAAAGAATTATTTTTTACTACATTACTATAATTATCCAATTATA
1 GGTAATTATAGTATTGAAGTAAAAAGAAATATTTTTTATTATATTACTATAATTATCCAATCATA
* * * *
1006712 TTCAAAAATTTTGTAGAGGGTTATCAGTTATAAGTATGAGTCCTATATAATATCTTGATGGGTCC
66 TTCAAAAATTTTGTA-AGGGTTATCACTTATAAATATGAGTCATACATAATATCTTGATGGGTCC
*
1006777 TATAAAAATCTTGAATATGG-TT
130 TATAAAAATCTTGAATAGGGATT
* * * * * *
1006799 AGGTAGTTGTAATATTGAAGTAAAAAGAAATATATTTTATTATATTACTGTAGTTATCCAATCAT
1 -GGTAATTATAGTATTGAAGTAAAAAGAAATATTTTTTATTATATTACTATAATTATCCAATCAT
* * * *
1006864 ATTCAAGAATTTTGT-AGGGTTCATCACTTATAAATATGGGTTATACATAATATTTTGATGGGTC
65 ATTCAAAAATTTTGTAAGGGTT-ATCACTTATAAATATGAGTCATACATAATATCTTGATGGGTC
*
1006928 CT-TAAAAAGTCTTGGAT-GGGATT
129 CTATAAAAA-TCTTGAATAGGGATT
* * * * *
1006951 GGATAATTATAGTATTAAAAG-AAAAA-AAATATTTTTTATTATTTTATTAAAATTATCTAATCA
1 GG-TAATTATAGTATT-GAAGTAAAAAGAAATATTTTTTATTATATTACTATAATTATCCAATCA
* * * *
1007014 TATTCAAAAATTTTATAA---TTAT--CTTAT--A-A--AGTCCTAAATAATAT-TTGATAGGTC
64 TATTCAAAAATTTTGTAAGGGTTATCACTTATAAATATGAGTCATACATAATATCTTGATGGGTC
* * * **
1007068 CCACAAAAATTTTGAAT-GTAATT
129 CTATAAAAATCTTGAATAGGGATT
* *
1007091 GGATAATTGTAGTATTGAA--AAAAA-AATCATTTTTTTTATTATATTACTATAATTATCCAATC
1 GG-TAATTATAGTATTGAAGTAAAAAGAA--ATATTTTTTATTATATTACTATAATTATCCAATC
* * * * * * * * *
1007153 AAATTTAAAAATTTTATAAAGGTTCATCACTTATATAAGT-TCAGGTCTTGCATAATATTTTGGT
63 ATATTCAAAAATTTTGTAAGGGTT-ATCACTTATA-AA-TATGA-GTCATACATAATATCTTGAT
* * **
1007217 GAGTCCTTACAAAAATCTTGAAT-GAAATT
124 GGGTCC-TATAAAAATCTTGAATAGGGATT
* * * * * * *
1007246 GGATAATTGTAATATTAAAGTAAAAAG-AATAATTTTTTACTACATTACAATAATTATCTAAGT-
1 GG-TAATTATAGTATTGAAGTAAAAAGAAAT-ATTTTTTATTATATTACTATAATTATCCAA-TC
* * * * * * * *
1007309 AT-TTTAAAGAATTTTATAACGGGTCATCATTTATAAATGTG-GTCTTACATAATATTTTGACGG
63 ATATTCAAA-AATTTTGTAA-GGGTTATCACTTATAAATATGAGTCATACATAATATCTTGATGG
* * * **
1007372 ATCCTATAAAAATTTTTAAT-GTAATT
126 GTCCTATAAAAATCTTGAATAGGGATT
* * *
1007398 GAATAATTGTAATATTGAAGT-AAAAGAAAT
1 G-GTAATTATAGTATTGAAGTAAAAAGAAAT
1007428 TATAAGTGAT
Statistics
Matches: 508, Mismatches: 85, Indels: 71
0.77 0.13 0.11
Matches are distributed among these distances:
138 7 0.01
139 2 0.00
140 81 0.16
141 16 0.03
143 3 0.01
144 3 0.01
146 10 0.02
148 2 0.00
149 3 0.01
151 65 0.13
152 102 0.20
153 103 0.20
154 9 0.02
155 47 0.09
156 45 0.09
157 10 0.02
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.40
Consensus pattern (152 bp):
GGTAATTATAGTATTGAAGTAAAAAGAAATATTTTTTATTATATTACTATAATTATCCAATCATA
TTCAAAAATTTTGTAAGGGTTATCACTTATAAATATGAGTCATACATAATATCTTGATGGGTCCT
ATAAAAATCTTGAATAGGGATT
Found at i:1007109 original size:292 final size:296
Alignment explanation
Indices: 1006623--1007284 Score: 655
Period size: 292 Copynumber: 2.2 Consensus size: 296
1006613 TGTTAGATCA
* * * * * * * *
1006623 TTACAAAAATCTTAAAT-ATTATTGGGTAATTATAGTATTGAAGTAAAAAGAATTATTTTTTACT
1 TTACAAAAATCTTGAATGA-AATTGGATAATTATAATATTAAAGTAAAAAAAATAATTTTTTATT
** * * * * *
1006687 ACATTACTATAATTATCCAATTATATTCAAAAATTTTGTAGAGGGTTATCAGTTATAAGTATGAG
65 ATTTTATTAAAATTATCTAATCATATTCAAAAATTTTATA-A---TTATC--TTAT-A--A--AG
* * * * ** *
1006752 TCCTATATAATATCTTGATGGGTCCTATAAAAATCTTGAATATGGTTAGGTAGTTGTAATATTGA
119 TCCTAAATAATATCTTGATAGGTCCCACAAAAATCTTGAATATAATTAGGTAATTGTAATATTGA
* * * * *
1006817 AGTAAAAAGAA-ATATATTTTATTATATTACTGTAGTTATCCAATCATATTCAAGAATTTTGT-A
184 A--AAAAA-AACATATATTTTATTATATTACTATAATTATCCAATCAAATTCAAAAATTTTATAA
* * *
1006880 GGGTTCATCACTTATA-AA-TAT-GGGT-TATACATAATATTTTGATGGGTCC
246 AGGTTCATCACTTATATAAGT-TCAGGTCT-TACATAATATTTTGATGAGTCC
* * ** *
1006929 TTA-AAAAGTCTTGGATGGGATTGGATAATTATAGTATTAAAAG-AAAAAAAAT-ATTTTTTATT
1 TTACAAAAATCTTGAATGAAATTGGATAATTATAATATT-AAAGTAAAAAAAATAATTTTTTATT
1006991 ATTTTATTAAAATTATCTAATCATATTCAAAAATTTTATAATTATCTTATAAAGTCCTAAATAAT
65 ATTTTATTAAAATTATCTAATCATATTCAAAAATTTTATAATTATCTTATAAAGTCCTAAATAAT
* * *
1007056 AT-TTGATAGGTCCCACAAAAATTTTGAATGTAATT-GGATAATTGTAGTATTGAAAAAAAAATC
130 ATCTTGATAGGTCCCACAAAAATCTTGAATATAATTAGG-TAATTGTAATATTGAAAAAAAAA-C
* * *
1007119 ATTTTTTTTATTATATTACTATAATTATCCAATCAAATTTAAAAATTTTATAAAGGTTCATCACT
193 ATATATTTTATTATATTACTATAATTATCCAATCAAATTCAAAAATTTTATAAAGGTTCATCACT
* *
1007184 TATATAAGTTCAGGTCTTGCATAATATTTTGGTGAGTCC
258 TATATAAGTTCAGGTCTTACATAATATTTTGATGAGTCC
* *
1007223 TTACAAAAATCTTGAATGAAATTGGATAATTGTAATATTAAAGTAAAAAGAATAATTTTTTA
1 TTACAAAAATCTTGAATGAAATTGGATAATTATAATATTAAAGTAAAAAAAATAATTTTTTA
1007285 CTACATTACA
Statistics
Matches: 297, Mismatches: 46, Indels: 36
0.78 0.12 0.09
Matches are distributed among these distances:
289 2 0.01
290 5 0.02
291 45 0.15
292 56 0.19
293 17 0.06
294 30 0.10
295 39 0.13
296 8 0.03
297 1 0.00
298 4 0.01
300 5 0.02
303 1 0.00
304 42 0.14
305 36 0.12
306 6 0.02
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.40
Consensus pattern (296 bp):
TTACAAAAATCTTGAATGAAATTGGATAATTATAATATTAAAGTAAAAAAAATAATTTTTTATTA
TTTTATTAAAATTATCTAATCATATTCAAAAATTTTATAATTATCTTATAAAGTCCTAAATAATA
TCTTGATAGGTCCCACAAAAATCTTGAATATAATTAGGTAATTGTAATATTGAAAAAAAAACATA
TATTTTATTATATTACTATAATTATCCAATCAAATTCAAAAATTTTATAAAGGTTCATCACTTAT
ATAAGTTCAGGTCTTACATAATATTTTGATGAGTCC
Found at i:1007315 original size:155 final size:152
Alignment explanation
Indices: 1007070--1007427 Score: 399
Period size: 156 Copynumber: 2.3 Consensus size: 152
1007060 GATAGGTCCC
* * * *
1007070 ACAAAAATTTTGAATGTAATTGGATAATTGTAGTATTGAA--AAAAAAATCATTTTTTTTATTAT
1 ACAAAAATTTTGAATGTAATTGGATAATTGTAATATTGAAGTAAAAAAATCATATTTTTTACTAC
* * *
1007133 ATTACTATAATTATCCAATCAAATTTAAA-AATTTTATAAAGGTTCATCACTTATATAA-GTTCA
66 ATTACAATAATTATCCAAT-AAATTTAAAGAATTTTATAAAGGGTCATCATTTATA-AATG-T--
*
1007196 GGTCTTGCATAATATTTTG-GTGAGTCCTT
126 GGTCTTACATAATATTTTGAG-GA-TCC-T
* * *
1007225 ACAAAAATCTTGAATGAAATTGGATAATTGTAATATTAAAGTAAAAAGAAT-A-ATTTTTTACTA
1 ACAAAAATTTTGAATGTAATTGGATAATTGTAATATTGAAGTAAAAA-AATCATATTTTTTACTA
* * *
1007288 CATTACAATAATTATCTAAGT-ATTTTAAAGAATTTTATAACGGGTCATCATTTATAAATGTGGT
65 CATTACAATAATTATCCAA-TAAATTTAAAGAATTTTATAAAGGGTCATCATTTATAAATGTGGT
1007352 CTTACATAATATTTTGACGGATCCT
129 CTTACATAATATTTTGA-GGATCCT
* * *
1007377 ATAAAAATTTTTAATGTAATTGAATAATTGTAATATTGAAGTAAAAGAAAT
1 ACAAAAATTTTGAATGTAATTGGATAATTGTAATATTGAAGTAAAA-AAAT
1007428 TATAAGTGAT
Statistics
Matches: 174, Mismatches: 20, Indels: 21
0.81 0.09 0.10
Matches are distributed among these distances:
152 44 0.25
153 22 0.13
154 2 0.01
155 47 0.27
156 49 0.28
157 7 0.04
158 3 0.02
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (152 bp):
ACAAAAATTTTGAATGTAATTGGATAATTGTAATATTGAAGTAAAAAAATCATATTTTTTACTAC
ATTACAATAATTATCCAATAAATTTAAAGAATTTTATAAAGGGTCATCATTTATAAATGTGGTCT
TACATAATATTTTGAGGATCCT
Found at i:1011096 original size:20 final size:20
Alignment explanation
Indices: 1011071--1011147 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 20
1011061 AAAAAGACAT
*
1011071 AATGTATTGATACATTTAAG
1 AATGTATCGATACATTTAAG
* *
1011091 AATGTATCGATATATTCATA-
1 AATGTATCGATACATTTA-AG
* * *
1011111 CATGTATCGATATATTGAAG
1 AATGTATCGATACATTTAAG
*
1011131 AATGTATCTATACATTT
1 AATGTATCGATACATTT
1011148 GGGTAAAAGA
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
19 1 0.02
20 44 0.96
21 1 0.02
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (20 bp):
AATGTATCGATACATTTAAG
Found at i:1011128 original size:91 final size:90
Alignment explanation
Indices: 1011021--1011189 Score: 266
Period size: 91 Copynumber: 1.9 Consensus size: 90
1011011 TTTTAACTAG
* *
1011021 ATGTATCGATACATTGAAAAATGTATCAATACATTTGGGTAAAAAGACATAATGTATTGATACAT
1 ATGTATCGATACATTGAAAAATGTATCAATACATTTGGGT-AAAAGACAGAATGTATCGATACAT
* *
1011086 TTAAGAATGTATCGATATATTCATAC
65 TAAAAAATGTATCGATATATTCATAC
* * *
1011112 ATGTATCGATATATTGAAGAATGTATCTATACATTTGGGTAAAAGACAGAATGTATCGATACATT
1 ATGTATCGATACATTGAAAAATGTATCAATACATTTGGGTAAAAGACAGAATGTATCGATACATT
1011177 AAAAAATGTATCG
66 AAAAAATGTATCG
1011190 GTACATTTGG
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
90 34 0.48
91 37 0.52
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.33
Consensus pattern (90 bp):
ATGTATCGATACATTGAAAAATGTATCAATACATTTGGGTAAAAGACAGAATGTATCGATACATT
AAAAAATGTATCGATATATTCATAC
Found at i:1015375 original size:20 final size:20
Alignment explanation
Indices: 1015328--1015402 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
1015318 AAAAAGACAT
*
1015328 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
1015347 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
1015368 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
1015388 AATGTATCGATACAT
1 AATGTATCGATACAT
1015403 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:1015396 original size:40 final size:39
Alignment explanation
Indices: 1015325--1015402 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1015315 GGTAAAAAGA
* *
1015325 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
1015364 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
1015403 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:1015979 original size:32 final size:32
Alignment explanation
Indices: 1015930--1016534 Score: 1021
Period size: 32 Copynumber: 18.9 Consensus size: 32
1015920 AATATGGTGA
* * **
1015930 TTTGAAAAGGGTTGCCACTGACTTGCATGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1015962 TTTTAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1015994 TTTGAAATGAGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1016026 TTTGGAATGGGTTGCCACCGACTTGTGTGGGT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1016058 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1016090 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1016122 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1016154 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1016186 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1016218 TTTGGAATGGGTTGCCACCGACTTGTGTGGGT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1016250 TTTGAAATGGGTTGCCACCGACTTGTGTGGGG
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1016282 TTTGAAATGGGTTGCCATCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1016314 TTTGAAATGAGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1016346 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1016378 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1016410 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1016442 TTTGGAATGGGTTGCCACCGACTTGTGTGGGG
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1016474 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1016506 TTTGAAATGGGTTGACACCGACTTGTGTG
1 TTTGAAATGGGTTGCCACCGACTTGTGTG
1016535 AGTTGCCACC
Statistics
Matches: 547, Mismatches: 26, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 547 1.00
ACGTcount: A:0.15, C:0.18, G:0.35, T:0.32
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:1016035 original size:64 final size:64
Alignment explanation
Indices: 1015930--1017049 Score: 1877
Period size: 64 Copynumber: 17.7 Consensus size: 64
1015920 AATATGGTGA
* * ** **
1015930 TTTGAAAAGGGTTGCCACTGACTTGCATGGGCTTTTAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGC
* *
1015994 TTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGC
*
1016058 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1016122 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGC
* *
1016186 TTTGGAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGC
* * *
1016250 TTTGAAATGGGTTGCCACCGACTTGTGTGGGGTTTGAAATGGGTTGCCATCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGC
*
1016314 TTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGC
*
1016378 TTTGGAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGC
* * *
1016442 TTTGGAATGGGTTGCCACCGACTTGTGTGGGGTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGC
*
1016506 TTTGAAATGGGTTGACACCGAC-T-TGT--G---T-G-A---GTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGC
* * *
1016558 TTTGGAATGGGTTGCCACCGACTTGTGTGGGTTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGC
*
1016622 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1016686 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGC
*
1016750 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGC
*
1016814 TTTGGAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGC
*
1016878 TTTGGAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGC
* * *
1016942 TTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCAACTTGTGTGGGT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGC
*
1017006 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGT
1017050 GAACATTCTA
Statistics
Matches: 999, Mismatches: 45, Indels: 24
0.94 0.04 0.02
Matches are distributed among these distances:
52 42 0.04
53 1 0.00
54 3 0.00
55 1 0.00
56 1 0.00
57 1 0.00
59 1 0.00
60 1 0.00
61 1 0.00
62 3 0.00
63 1 0.00
64 943 0.94
ACGTcount: A:0.15, C:0.18, G:0.35, T:0.32
Consensus pattern (64 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:1016104 original size:96 final size:96
Alignment explanation
Indices: 1015930--1017049 Score: 1877
Period size: 96 Copynumber: 11.8 Consensus size: 96
1015920 AATATGGTGA
* * ** **
1015930 TTTGAAAAGGGTTGCCACTGACTTGCATGGGCTTTTAAATGGGTTGCCACCGACTTGTGTGGGCT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGCT
*
1015995 TTGAAATGAGTTGCCACCGACTTGTGTGGGC
66 TTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
1016026 TTTGGAATGGGTTGCCACCGACTTGTGTGGGTTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGCT
1016091 TTGAAATGGGTTGCCACCGACTTGTGTGGGC
66 TTGAAATGGGTTGCCACCGACTTGTGTGGGC
1016122 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGCT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGCT
*
1016187 TTGGAATGGGTTGCCACCGACTTGTGTGGGC
66 TTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * * *
1016218 TTTGGAATGGGTTGCCACCGACTTGTGTGGGTTTTGAAATGGGTTGCCACCGACTTGTGTGGGGT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGCT
*
1016283 TTGAAATGGGTTGCCATCGACTTGTGTGGGC
66 TTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1016314 TTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGCT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGCT
*
1016379 TTGGAATGGGTTGCCACCGACTTGTGTGGGC
66 TTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1016410 TTTGGAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGGT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGCT
1016475 TTGAAATGGGTTGCCACCGACTTGTGTGGGC
66 TTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1016506 TTTGAAATGGGTTGACACCGAC-T-TGT--G---T-G-A---GTTGCCACCGACTTGTGTGGGCT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGCT
* *
1016559 TTGGAATGGGTTGCCACCGACTTGTGTGGGT
66 TTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1016590 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGCT
1016655 TTGAAATGGGTTGCCACCGACTTGTGTGGGC
66 TTGAAATGGGTTGCCACCGACTTGTGTGGGC
1016686 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGCT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGCT
1016751 TTGAAATGGGTTGCCACCGACTTGTGTGGGC
66 TTGAAATGGGTTGCCACCGACTTGTGTGGGC
1016782 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGCT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGCT
*
1016847 TTGGAATGGGTTGCCACCGACTTGTGTGGGC
66 TTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1016878 TTTGGAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGCT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGCT
*
1016943 TTGAAATGAGTTGCCACCGACTTGTGTGGGC
66 TTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * * *
1016974 TTTGGAATGGGTTGCCACCAACTTGTGTGGGTTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGCT
1017039 TTGAAATGGGT
66 TTGAAATGGGT
1017050 GAACATTCTA
Statistics
Matches: 965, Mismatches: 47, Indels: 24
0.93 0.05 0.02
Matches are distributed among these distances:
84 72 0.07
85 1 0.00
86 3 0.00
87 1 0.00
88 2 0.00
89 1 0.00
91 1 0.00
92 1 0.00
93 1 0.00
94 3 0.00
95 1 0.00
96 878 0.91
ACGTcount: A:0.15, C:0.18, G:0.35, T:0.32
Consensus pattern (96 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGCT
TTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:1016544 original size:20 final size:20
Alignment explanation
Indices: 1016516--1016554 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1016506 TTTGAAATGG
1016516 GTTGACACCGACTTGTGTGA
1 GTTGACACCGACTTGTGTGA
*
1016536 GTTGCCACCGACTTGTGTG
1 GTTGACACCGACTTGTGTG
1016555 GGCTTTGGAA
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:0.15, C:0.23, G:0.31, T:0.31
Consensus pattern (20 bp):
GTTGACACCGACTTGTGTGA
Found at i:1016577 original size:32 final size:32
Alignment explanation
Indices: 1016536--1017049 Score: 929
Period size: 32 Copynumber: 16.1 Consensus size: 32
1016526 ACTTGTGTGA
*
1016536 GTTGCCACCGACTTGTGTGGGCTTTGGAATGG
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
*
1016568 GTTGCCACCGACTTGTGTGGGTTTTGAAATGG
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
1016600 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
1016632 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
1016664 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
*
1016696 GTTGCCACCGACTTGTGTGGGCTTTGGAATGG
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
1016728 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
1016760 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
*
1016792 GTTGCCACCGACTTGTGTGGGCTTTGGAATGG
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
*
1016824 GTTGCCACCGACTTGTGTGGGCTTTGGAATGG
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
*
1016856 GTTGCCACCGACTTGTGTGGGCTTTGGAATGG
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
*
1016888 GTTGCCACCGACTTGTGTGGGCTTTGGAATGG
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
*
1016920 GTTGCCACCGACTTGTGTGGGCTTTGAAATGA
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
*
1016952 GTTGCCACCGACTTGTGTGGGCTTTGGAATGG
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
* *
1016984 GTTGCCACCAACTTGTGTGGGTTTTGAAATGG
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
1017016 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
1 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
1017048 GT
1 GT
1017050 GAACATTCTA
Statistics
Matches: 467, Mismatches: 15, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 467 1.00
ACGTcount: A:0.15, C:0.18, G:0.35, T:0.32
Consensus pattern (32 bp):
GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
Found at i:1018293 original size:12 final size:14
Alignment explanation
Indices: 1018268--1018300 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
1018258 GACCCTTCTA
1018268 TTTTTTGCTATTTT
1 TTTTTTGCTATTTT
1018282 TTTTTTG-T-TTTT
1 TTTTTTGCTATTTT
1018294 TTTTTTG
1 TTTTTTG
1018301 GGTGTAACGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
13 1 0.05
14 7 0.37
ACGTcount: A:0.03, C:0.03, G:0.09, T:0.85
Consensus pattern (14 bp):
TTTTTTGCTATTTT
Found at i:1032685 original size:20 final size:20
Alignment explanation
Indices: 1032660--1032736 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 20
1032650 AAAAAGACAT
*
1032660 AATGTATTGATACATTTAAG
1 AATGTATCGATACATTTAAG
* *
1032680 AATGTATCGATATATTCATA-
1 AATGTATCGATACATTTA-AG
* * *
1032700 CATGTATCGATATATTGAAG
1 AATGTATCGATACATTTAAG
*
1032720 AATGTATCTATACATTT
1 AATGTATCGATACATTT
1032737 GGGTAAAAGA
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
19 1 0.02
20 44 0.96
21 1 0.02
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (20 bp):
AATGTATCGATACATTTAAG
Found at i:1032717 original size:91 final size:90
Alignment explanation
Indices: 1032610--1032778 Score: 266
Period size: 91 Copynumber: 1.9 Consensus size: 90
1032600 TTTTAACTAG
* *
1032610 ATGTATCGATACATTGAAAAATGTATCAATACATTTGGGTAAAAAGACATAATGTATTGATACAT
1 ATGTATCGATACATTGAAAAATGTATCAATACATTTGGGT-AAAAGACAGAATGTATCGATACAT
* *
1032675 TTAAGAATGTATCGATATATTCATAC
65 TAAAAAATGTATCGATATATTCATAC
* * *
1032701 ATGTATCGATATATTGAAGAATGTATCTATACATTTGGGTAAAAGACAGAATGTATCGATACATT
1 ATGTATCGATACATTGAAAAATGTATCAATACATTTGGGTAAAAGACAGAATGTATCGATACATT
1032766 AAAAAATGTATCG
66 AAAAAATGTATCG
1032779 GTACATTTGG
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
90 34 0.48
91 37 0.52
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.33
Consensus pattern (90 bp):
ATGTATCGATACATTGAAAAATGTATCAATACATTTGGGTAAAAGACAGAATGTATCGATACATT
AAAAAATGTATCGATATATTCATAC
Found at i:1036964 original size:20 final size:20
Alignment explanation
Indices: 1036917--1036991 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
1036907 AAAAAGACAT
*
1036917 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
1036936 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
1036957 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
1036977 AATGTATCGATACAT
1 AATGTATCGATACAT
1036992 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:1036985 original size:40 final size:39
Alignment explanation
Indices: 1036914--1036991 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1036904 GGTAAAAAGA
* *
1036914 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
1036953 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
1036992 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:1037563 original size:17 final size:20
Alignment explanation
Indices: 1037524--1037567 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 20
1037514 AAATTTGTTT
1037524 TATTATTTATTATTATTAAAA
1 TATTATTTATTATTATT-AAA
1037545 TATTATTT-TTA-TATT-AA
1 TATTATTTATTATTATTAAA
1037562 TATTAT
1 TATTAT
1037568 AAATTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 8 0.35
19 4 0.17
20 3 0.13
21 8 0.35
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TATTATTTATTATTATTAAA
Found at i:1037575 original size:22 final size:20
Alignment explanation
Indices: 1037549--1037590 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
1037539 TTAAAATATT
1037549 ATTTTTAT-ATTAATATTATAA
1 ATTTTTATAATTAA-A-TATAA
1037570 ATTTTTATAATTAAATATAA
1 ATTTTTATAATTAAATATAA
1037590 A
1 A
1037591 AAAAATATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 6 0.30
21 9 0.45
22 5 0.25
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATTTTTATAATTAAATATAA
Found at i:1037815 original size:28 final size:30
Alignment explanation
Indices: 1037784--1037848 Score: 89
Period size: 28 Copynumber: 2.2 Consensus size: 30
1037774 CTTACGTAAG
1037784 TTTTTATACTTATATTT-TATTTAAAT-AA
1 TTTTTATACTTATATTTGTATTTAAATAAA
** *
1037812 TTTTTATTTTTTTATTTGTATTTAAATAAA
1 TTTTTATACTTATATTTGTATTTAAATAAA
1037842 TTTTTAT
1 TTTTTAT
1037849 TTAAATAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
28 14 0.44
29 9 0.28
30 9 0.28
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (30 bp):
TTTTTATACTTATATTTGTATTTAAATAAA
Found at i:1037883 original size:17 final size:16
Alignment explanation
Indices: 1037830--1037887 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
1037820 TTTTTATTTG
**
1037830 TATTTAAATAAATTTT
1 TATTTAAATAAAAATT
1037846 TATTTAAATAAAAATT
1 TATTTAAATAAAAATT
* * *
1037862 AATTTATATTAAAAGTT
1 TATTTA-AATAAAAATT
1037879 TATTTAAAT
1 TATTTAAAT
1037888 GTAAATGAGA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
16 21 0.62
17 13 0.38
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (16 bp):
TATTTAAATAAAAATT
Found at i:1038058 original size:17 final size:17
Alignment explanation
Indices: 1038018--1038060 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
1038008 CAAATAAATT
1038018 TTTATTTAAATGAAAAA
1 TTTATTTAAATGAAAAA
* * * *
1038035 TTGATTTATATGAAGAG
1 TTTATTTAAATGAAAAA
1038052 TTTATTTAA
1 TTTATTTAA
1038061 GTAAATTGAT
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.47
Consensus pattern (17 bp):
TTTATTTAAATGAAAAA
Found at i:1041919 original size:66 final size:68
Alignment explanation
Indices: 1041837--1041972 Score: 186
Period size: 68 Copynumber: 2.0 Consensus size: 68
1041827 TCTGTGCATG
* * * * *
1041837 TATGCATGAGTTTGAATGTGC-ACGTTTTATGTGTGGAACATTTTCTACTTT-TTTGTTGTTTAT
1 TATGCATGAGTATGAATGTGCAACGTTTGAGGTGTAGAACATTTTCTACTTTATTTGTTGTTTAC
1041900 GTA
66 GTA
* *
1041903 TATGCATGAGTATGAATGTGCATATGTTTGAGGTGTAGCACATTTTCTACTTTATTTGTTGTTTA
1 TATGCATGAGTATGAATGTGCA-ACGTTTGAGGTGTAGAACATTTTCTACTTTATTTGTTGTTTA
1041968 CGTA
65 CGTA
1041972 T
1 T
1041973 TTTATCTTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
66 20 0.33
68 25 0.42
69 15 0.25
ACGTcount: A:0.21, C:0.10, G:0.21, T:0.48
Consensus pattern (68 bp):
TATGCATGAGTATGAATGTGCAACGTTTGAGGTGTAGAACATTTTCTACTTTATTTGTTGTTTAC
GTA
Found at i:1044896 original size:16 final size:16
Alignment explanation
Indices: 1044871--1044901 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1044861 AAATTTTTAA
*
1044871 AAAAATATATATTCAC
1 AAAAAGATATATTCAC
1044887 AAAAAGATATATTCA
1 AAAAAGATATATTCA
1044902 GTTTTAACTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.10, G:0.03, T:0.29
Consensus pattern (16 bp):
AAAAAGATATATTCAC
Found at i:1051363 original size:26 final size:26
Alignment explanation
Indices: 1051334--1051396 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
1051324 AGAATGAATT
*
1051334 TGAGAGGGATACATAAGAGGAATACA
1 TGAGAGGGAGACATAAGAGGAATACA
** * *
1051360 TGAGAAAGAGACATGAGAGGAATGCA
1 TGAGAGGGAGACATAAGAGGAATACA
*
1051386 TGTGAGGGAGA
1 TGAGAGGGAGA
1051397 AGAAAACCTC
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.43, C:0.06, G:0.37, T:0.14
Consensus pattern (26 bp):
TGAGAGGGAGACATAAGAGGAATACA
Found at i:1051481 original size:21 final size:22
Alignment explanation
Indices: 1051448--1051491 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
1051438 AATAAAAATT
* *
1051448 AGCCACTAA-TTTTGACAAACA
1 AGCCACCAATTTTTAACAAACA
*
1051469 AGCCACCAGTTTTTAACAAACA
1 AGCCACCAATTTTTAACAAACA
1051491 A
1 A
1051492 AAAGGAATCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.43, C:0.25, G:0.09, T:0.23
Consensus pattern (22 bp):
AGCCACCAATTTTTAACAAACA
Found at i:1054620 original size:34 final size:35
Alignment explanation
Indices: 1054582--1054648 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1054572 CCTTACAACA
1054582 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
1054616 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
1054649 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:1055124 original size:13 final size:13
Alignment explanation
Indices: 1055106--1055131 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1055096 CAATTTTTTG
1055106 TGTATCGATACAT
1 TGTATCGATACAT
1055119 TGTATCGATACAT
1 TGTATCGATACAT
1055132 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1055196 original size:21 final size:21
Alignment explanation
Indices: 1055170--1055245 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1055160 CTGCCAAGAA
1055170 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
1055191 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
*
1055211 ATCTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1055232 ATGTATCGATACAT
1 ATGTATCGATACAT
1055246 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1055219 original size:20 final size:20
Alignment explanation
Indices: 1055190--1055263 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
1055180 ACATCTTTTT
1055190 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
* ****
1055210 CATCTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
1055231 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
1055251 CATGTATCGATAC
1 CATGTATCGATAC
1055264 TTTGAATTGT
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 28 0.65
21 15 0.35
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:1055230 original size:41 final size:41
Alignment explanation
Indices: 1055173--1055263 Score: 173
Period size: 41 Copynumber: 2.2 Consensus size: 41
1055163 CCAAGAAATG
1055173 TATCGATACATCTTTTTCATGTATCGATACATTGCAACATC
1 TATCGATACATCTTTTTCATGTATCGATACATTGCAACATC
*
1055214 TATCGATACATCTTTTTCATGTATCGATACATTGCAACATG
1 TATCGATACATCTTTTTCATGTATCGATACATTGCAACATC
1055255 TATCGATAC
1 TATCGATAC
1055264 TTTGAATTGT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (41 bp):
TATCGATACATCTTTTTCATGTATCGATACATTGCAACATC
Found at i:1057199 original size:13 final size:13
Alignment explanation
Indices: 1057181--1057205 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1057171 ACTGAAGCAA
1057181 TGTATCGATACAT
1 TGTATCGATACAT
1057194 TGTATCGATACA
1 TGTATCGATACA
1057206 ATCTGGAAAA
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:1058797 original size:84 final size:84
Alignment explanation
Indices: 1058707--1058871 Score: 201
Period size: 84 Copynumber: 2.0 Consensus size: 84
1058697 CATTTTCCAC
* * * * *
1058707 TTGCAACTCATTTC-TTTTCTCCTCTAATTCATTTATTTTCTTTCTAAAAGAAT-T-ATTTTCTA
1 TTGCAACTC-TTTCATATTCTCCTCTAATTCACTTAATTTATTT-T-AAAGAATATCATTCTCTA
1058769 AACTCATTGATTTACTTTCATT
63 AACTCATTGATTTACTTTCATT
* * *
1058791 TTGCAACTCTTTCATATTCTTCTCTAATTCACTTAATTTATTTTTAAGAATATCATTCTCTACAC
1 TTGCAACTCTTTCATATTCTCCTCTAATTCACTTAATTTATTTTAAAGAATATCATTCTCTAAAC
*
1058856 TTATTGATTTACTTTC
66 TCATTGATTTACTTTC
1058872 TTCTTTGAGT
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
82 6 0.09
83 6 0.09
84 57 0.83
ACGTcount: A:0.25, C:0.19, G:0.04, T:0.52
Consensus pattern (84 bp):
TTGCAACTCTTTCATATTCTCCTCTAATTCACTTAATTTATTTTAAAGAATATCATTCTCTAAAC
TCATTGATTTACTTTCATT
Found at i:1060435 original size:34 final size:35
Alignment explanation
Indices: 1060397--1060463 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1060387 CCTTACAACA
1060397 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
1060431 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
1060464 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:1060939 original size:13 final size:13
Alignment explanation
Indices: 1060921--1060946 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1060911 CAATTTTTTG
1060921 TGTATCGATACAT
1 TGTATCGATACAT
1060934 TGTATCGATACAT
1 TGTATCGATACAT
1060947 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1061011 original size:21 final size:21
Alignment explanation
Indices: 1060985--1061060 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1060975 CTGCCAAGAA
1060985 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
1061006 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
*
1061026 ATCTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1061047 ATGTATCGATACAT
1 ATGTATCGATACAT
1061061 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1061034 original size:20 final size:20
Alignment explanation
Indices: 1061005--1061078 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
1060995 ACATCTTTTT
1061005 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
* ****
1061025 CATCTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
1061046 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
1061066 CATGTATCGATAC
1 CATGTATCGATAC
1061079 TTTGAATTGT
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 28 0.65
21 15 0.35
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:1061045 original size:41 final size:41
Alignment explanation
Indices: 1060988--1061078 Score: 173
Period size: 41 Copynumber: 2.2 Consensus size: 41
1060978 CCAAGAAATG
1060988 TATCGATACATCTTTTTCATGTATCGATACATTGCAACATC
1 TATCGATACATCTTTTTCATGTATCGATACATTGCAACATC
*
1061029 TATCGATACATCTTTTTCATGTATCGATACATTGCAACATG
1 TATCGATACATCTTTTTCATGTATCGATACATTGCAACATC
1061070 TATCGATAC
1 TATCGATAC
1061079 TTTGAATTGT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (41 bp):
TATCGATACATCTTTTTCATGTATCGATACATTGCAACATC
Found at i:1064724 original size:2 final size:2
Alignment explanation
Indices: 1064717--1064758 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1064707 AAGGAATGGA
1064717 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
1064759 TGGCTACATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1064970 original size:25 final size:24
Alignment explanation
Indices: 1064939--1064985 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
1064929 TAATTAAAAT
1064939 AATTTTAAAATTAATTCAAATTTAA
1 AATTTTAAAATTAATT-AAATTTAA
**
1064964 AATTTTAATGTTAATTAAATTT
1 AATTTTAAAATTAATTAAATTT
1064986 TCATAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (24 bp):
AATTTTAAAATTAATTAAATTTAA
Found at i:1066800 original size:139 final size:137
Alignment explanation
Indices: 1066543--1066792 Score: 373
Period size: 139 Copynumber: 1.8 Consensus size: 137
1066533 TGTCCCAAGA
**
1066543 AACTTAAAAAATTTTAGGGGGTCAAACATAAATATACCATTTTTTGAAAGAATAAATATACCATT
1 AACTTAAAAAATTTTAGGGAATCAAACATAAATATACCATTTTTTGAAAGAATAAATATACCATT
* * * *
1066608 TTTTAAATAATGATATTAAGGTATTTGAAAAATAAAAATTGAAAATTTTAGGGGGTGCCAAAACA
66 TTTCAAATAATGATATTAAGGTATATGAAAAATAAAAATTAAAAATTTGAGGGGGTGCCAAAACA
1066673 TAAATAT
131 TAAATAT
1066680 AACTTAAAAAATTTT-GGGAATCAAACATAAATATACCATTTTTTTTTGAAAGAATAAATATACC
1 AACTTAAAAAATTTTAGGGAATCAAACATAAATATACCA---TTTTTTGAAAGAATAAATATACC
*
1066744 ATTTTTCAAATAATGATATTAAGGTA-AT-AAAAA-AAAACTTAACAAATTT
63 ATTTTTCAAATAATGATATTAAGGTATATGAAAAATAAAAATTAA-AAATTT
1066793 AGGAGGGGCT
Statistics
Matches: 103, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
136 28 0.27
137 26 0.25
138 1 0.01
139 48 0.47
ACGTcount: A:0.48, C:0.08, G:0.10, T:0.34
Consensus pattern (137 bp):
AACTTAAAAAATTTTAGGGAATCAAACATAAATATACCATTTTTTGAAAGAATAAATATACCATT
TTTCAAATAATGATATTAAGGTATATGAAAAATAAAAATTAAAAATTTGAGGGGGTGCCAAAACA
TAAATAT
Found at i:1066917 original size:18 final size:20
Alignment explanation
Indices: 1066873--1066915 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1066863 AATTCATGTA
**
1066873 TTTTTATTATAATTTTGATT
1 TTTTTATTATAATAATGATT
1066893 TTTTTATTATAATAAT-ATT
1 TTTTTATTATAATAATGATT
1066912 TTTT
1 TTTT
1066916 ATAATTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTTTATTATAATAATGATT
Found at i:1067828 original size:20 final size:20
Alignment explanation
Indices: 1067791--1067829 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1067781 TAATTAAAAA
***
1067791 TATTTTAAATATTTAAATAT
1 TATTTTAAATAACAAAATAT
1067811 TATTTTAAATAACAAAATA
1 TATTTTAAATAACAAAATA
1067830 AACTTTTGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (20 bp):
TATTTTAAATAACAAAATAT
Found at i:1068938 original size:118 final size:117
Alignment explanation
Indices: 1068762--1068983 Score: 268
Period size: 118 Copynumber: 1.9 Consensus size: 117
1068752 AATTGAATAC
* ** *
1068762 AATATAATTACATTCATACCCATATTTAAATATAAACCAAATGTTCATATTTGGATATAAATTAA
1 AATATAATTACATTCATACCCATATTTAAATATAAACCAAATGTCCATATTTAAATATAAATCAA
* *
1068827 ACACAATTT-TTTCATATTCAAATCCATAATATCCATATCCAAAGATAAATCG
66 ACACAATTTGTTT-ATATTCAAACCCACAATATCCATATCCAAAGATAAATCG
* * * ***
1068879 AATATAATTTCATATCTATATCCATATTTGAATAT-AATTGAATGTCCATATTTAAATATAAATC
1 AATATAATTACAT-TC-ATACCCATATTTAAATATAAACCAAATGTCCATATTTAAATATAAATC
* * *
1068943 CAACACTATTTGTTTATATTCAAACCCACAATATTCATATC
64 AAACACAATTTGTTTATATTCAAACCCACAATATCCATATC
1068984 TAAATATGAA
Statistics
Matches: 87, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
117 12 0.14
118 56 0.64
119 19 0.22
ACGTcount: A:0.42, C:0.16, G:0.04, T:0.37
Consensus pattern (117 bp):
AATATAATTACATTCATACCCATATTTAAATATAAACCAAATGTCCATATTTAAATATAAATCAA
ACACAATTTGTTTATATTCAAACCCACAATATCCATATCCAAAGATAAATCG
Found at i:1072606 original size:19 final size:21
Alignment explanation
Indices: 1072584--1072634 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 21
1072574 AACTTTTGAA
1072584 TTTAATTAATTT-TT-TTATT
1 TTTAATTAATTTATTATTATT
*
1072603 TTTAATATATTTTATTATTATT
1 TTTAAT-TAATTTATTATTATT
*
1072625 ATTAATTAAT
1 TTTAATTAAT
1072635 ATTGAAAAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 6 0.23
20 5 0.19
21 5 0.19
22 10 0.38
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTAATTAATTTATTATTATT
Found at i:1073423 original size:27 final size:25
Alignment explanation
Indices: 1073391--1073440 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
1073381 AATCATAATC
*
1073391 ATAATTTAATATTTTTGTTGTTATTTT
1 ATAATTT-ATATTTTTATT-TTATTTT
*
1073418 ATAATTTTTATTTTTATTTTATT
1 ATAATTTATATTTTTATTTTATT
1073441 ATTAACATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.24
26 9 0.43
27 7 0.33
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (25 bp):
ATAATTTATATTTTTATTTTATTTT
Found at i:1073424 original size:20 final size:20
Alignment explanation
Indices: 1073401--1073439 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1073391 ATAATTTAAT
*
1073401 ATTTTTGTTGTTATTTTATA
1 ATTTTTATTGTTATTTTATA
*
1073421 ATTTTTATTTTTATTTTAT
1 ATTTTTATTGTTATTTTAT
1073440 TATTAACATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (20 bp):
ATTTTTATTGTTATTTTATA
Found at i:1074172 original size:16 final size:16
Alignment explanation
Indices: 1074151--1074184 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1074141 TGAATTAAGA
1074151 AATTTTATATTGTTTT
1 AATTTTATATTGTTTT
* *
1074167 AATTTTTTATTTTTTT
1 AATTTTATATTGTTTT
1074183 AA
1 AA
1074185 ATATTTGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
AATTTTATATTGTTTT
Found at i:1074665 original size:19 final size:18
Alignment explanation
Indices: 1074634--1074672 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
1074624 TTAATTTAAA
*
1074634 AATATTTTTTAATATTTT
1 AATATTTTTTAATAATTT
1074652 AATATTTTTATAATAATTT
1 AATATTTTT-TAATAATTT
1074671 AA
1 AA
1074673 AATAATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
AATATTTTTTAATAATTT
Found at i:1076320 original size:17 final size:17
Alignment explanation
Indices: 1076300--1076342 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
1076290 TGAATTAACC
1076300 AAATAAATTAATTTTAA
1 AAATAAATTAATTTTAA
*
1076317 AAATTAATTAATTTTAA
1 AAATAAATTAATTTTAA
1076334 AAATTAAAT
1 AAA-TAAAT
1076343 AAATCAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AAATAAATTAATTTTAA
Found at i:1083848 original size:52 final size:52
Alignment explanation
Indices: 1083770--1083874 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 52
1083760 GCGTTTTGTA
*
1083770 TAATTTTAACATTTCTTGAATTTTGCTCATAAATTTAAGATTTTTTACTCAC
1 TAATTTTAACATTTCTTGAATGTTGCTCATAAATTTAAGATTTTTTACTCAC
* *
1083822 TAATTTTAGCATTTCTTGAATGTTGCTCATGAATTTAAGATTTTTTACTCAC
1 TAATTTTAACATTTCTTGAATGTTGCTCATAAATTTAAGATTTTTTACTCAC
1083874 T
1 T
1083875 TACTTACAAG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.29, C:0.13, G:0.09, T:0.50
Consensus pattern (52 bp):
TAATTTTAACATTTCTTGAATGTTGCTCATAAATTTAAGATTTTTTACTCAC
Found at i:1099306 original size:21 final size:21
Alignment explanation
Indices: 1099280--1099323 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1099270 AAAAAATAAT
*
1099280 TTTTAT-ATTAATATTTATATA
1 TTTTATAATTAA-ATTTAAATA
1099301 TTTTATAATTAAATTTAAATA
1 TTTTATAATTAAATTTAAATA
1099322 TT
1 TT
1099324 ATTTTATCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTTATAATTAAATTTAAATA
Found at i:1100033 original size:19 final size:20
Alignment explanation
Indices: 1099995--1100065 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
1099985 TTTTAATTAA
*
1099995 AAATTCAATTATTCAAAAAT
1 AAATTCAATTAATCAAAAAT
*
1100015 AAATTGAATTAAT-AAAAAT
1 AAATTCAATTAATCAAAAAT
* * * **
1100034 AATTTTAATTACTCAAATTT
1 AAATTCAATTAATCAAAAAT
1100054 AAATCTCAATTA
1 AAAT-TCAATTA
1100066 TAATAAATTT
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
19 16 0.40
20 18 0.45
21 6 0.15
ACGTcount: A:0.52, C:0.08, G:0.01, T:0.38
Consensus pattern (20 bp):
AAATTCAATTAATCAAAAAT
Found at i:1103844 original size:2 final size:2
Alignment explanation
Indices: 1103839--1103863 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1103829 AAAGAGTGTG
1103839 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 T
1103864 TCCGATTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1113403 original size:6 final size:6
Alignment explanation
Indices: 1113392--1113430 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
1113382 AAATTGAGAC
1113392 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATA
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATA
1113431 AAGCAAAAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.33
Consensus pattern (6 bp):
ATACAT
Found at i:1113850 original size:18 final size:19
Alignment explanation
Indices: 1113822--1113858 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
1113812 ATTTAAATCT
1113822 AATTATTAAAAAAATAAAA
1 AATTATTAAAAAAATAAAA
*
1113841 AATT-TTAAAAATATAAAA
1 AATTATTAAAAAAATAAAA
1113859 TATAAAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
AATTATTAAAAAAATAAAA
Found at i:1114380 original size:16 final size:16
Alignment explanation
Indices: 1114355--1114388 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
1114345 ATGGAAAAAC
1114355 AAATTTTAATA-TTAT
1 AAATTTTAATATTTAT
1114370 AAATATTTAATATTTAT
1 AAAT-TTTAATATTTAT
1114387 AA
1 AA
1114389 TCCTTAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 7 0.41
17 6 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AAATTTTAATATTTAT
Found at i:1114543 original size:18 final size:16
Alignment explanation
Indices: 1114520--1114560 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
1114510 TGATGAGAGG
1114520 AAAAAATGAAAATTAATT
1 AAAAAAT-AAAATTAA-T
*
1114538 AAAAAATTAAATTAAT
1 AAAAAATAAAATTAAT
1114554 AAAAAAT
1 AAAAAAT
1114561 TTTCTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.36
17 7 0.32
18 7 0.32
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (16 bp):
AAAAAATAAAATTAAT
Found at i:1114556 original size:16 final size:17
Alignment explanation
Indices: 1114529--1114561 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
1114519 GAAAAAATGA
1114529 AAATTAATTAAAAAATT
1 AAATTAATTAAAAAATT
1114546 AAATTAA-TAAAAAATT
1 AAATTAATTAAAAAATT
1114562 TTCTTAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATTAATTAAAAAATT
Found at i:1116598 original size:23 final size:23
Alignment explanation
Indices: 1116572--1116615 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
1116562 TCAGTAAACT
*
1116572 AATT-AATGTAAAAATTAAAATTA
1 AATTAAAT-TAAAAATAAAAATTA
1116595 AATTAAATTAAAAATAAAAAT
1 AATTAAATTAAAAATAAAAAT
1116616 AGTAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (23 bp):
AATTAAATTAAAAATAAAAATTA
Found at i:1122755 original size:29 final size:30
Alignment explanation
Indices: 1122662--1122763 Score: 129
Period size: 30 Copynumber: 3.5 Consensus size: 30
1122652 GTTAGGGTTA
* * *
1122662 ATTTAAGTACAAATTAAAAGTTAAAAATTT
1 ATTTAAATATAAATTAAAAATTAAAAATTT
*
1122692 ATTTAAATATAAATTAAAAATTAAAAGTTT
1 ATTTAAATATAAATTAAAAATTAAAAATTT
*
1122722 ATTTAAATAT-AA-TAAATATATAAAAATTT
1 ATTTAAATATAAATTAAAAAT-TAAAAATTT
1122751 ATTTAAATA-AAAT
1 ATTTAAATATAAAT
1122764 GATTAAATTT
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
28 6 0.10
29 21 0.33
30 36 0.57
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (30 bp):
ATTTAAATATAAATTAAAAATTAAAAATTT
Found at i:1122777 original size:29 final size:28
Alignment explanation
Indices: 1122685--1122782 Score: 92
Period size: 29 Copynumber: 3.4 Consensus size: 28
1122675 TTAAAAGTTA
1122685 AAAATTTATTTAAATATAAATTAA-AAATT
1 AAAATTTATTTAAATA-AAA-TAATAAATT
* * *
1122714 AAAAGTTTATTTAAATATAATAAATATATA
1 AAAA-TTTATTTAAATAAAAT-AATAAATT
*
1122744 AAAATTTATTTAAATAAAATGATTAAATT
1 AAAATTTATTTAAATAAAAT-AATAAATT
*
1122773 TAAA-TTATTT
1 AAAATTTATTT
1122783 TATTATTTCA
Statistics
Matches: 57, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.12
29 31 0.54
30 19 0.33
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (28 bp):
AAAATTTATTTAAATAAAATAATAAATT
Found at i:1123107 original size:2 final size:2
Alignment explanation
Indices: 1123100--1123129 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1123090 CATTAGATAC
1123100 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
1123130 TAATGTGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1124102 original size:21 final size:20
Alignment explanation
Indices: 1124063--1124102 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
1124053 AATTAGTTTT
*
1124063 AAATAATAAAATTAACAATA
1 AAATAATAAAATGAACAATA
*
1124083 AAATAAATAAAATGATCAAT
1 AAAT-AATAAAATGAACAAT
1124103 TTTTATGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.25
Consensus pattern (20 bp):
AAATAATAAAATGAACAATA
Found at i:1125569 original size:20 final size:19
Alignment explanation
Indices: 1125538--1125599 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 19
1125528 TATAGCTTGT
1125538 TTTTTACTTCTTTCCATTGA
1 TTTTT-CTTCTTTCCATTGA
*
1125558 TATTTTCTTCTTT-CTTTGA
1 T-TTTTCTTCTTTCCATTGA
*
1125577 TTTTTCTT-TATCCATTGGA
1 TTTTTCTTCTTTCCATT-GA
1125596 TTTT
1 TTTT
1125600 CCCATCAACC
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 2 0.06
18 10 0.28
19 12 0.33
20 8 0.22
21 4 0.11
ACGTcount: A:0.13, C:0.16, G:0.06, T:0.65
Consensus pattern (19 bp):
TTTTTCTTCTTTCCATTGA
Found at i:1127264 original size:10 final size:11
Alignment explanation
Indices: 1127237--1127316 Score: 53
Period size: 10 Copynumber: 7.5 Consensus size: 11
1127227 ACATGATAAG
*
1127237 AAAATGATATA
1 AAAATAATATA
*
1127248 CAAATAAT-TA
1 AAAATAATATA
1127258 AAAATAATAT-
1 AAAATAATATA
1127268 AAAAT-ATGATA
1 AAAATAAT-ATA
* *
1127279 CAACATGATA-A
1 -AAAATAATATA
1127290 AAAAT-ATATA
1 AAAATAATATA
* *
1127300 AATATTATATA
1 AAAATAATATA
1127311 AAAATA
1 AAAATA
1127317 TAAAAACGTA
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
9 5 0.09
10 25 0.46
11 17 0.31
12 5 0.09
13 2 0.04
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.29
Consensus pattern (11 bp):
AAAATAATATA
Found at i:1127272 original size:31 final size:29
Alignment explanation
Indices: 1127237--1127322 Score: 84
Period size: 31 Copynumber: 2.8 Consensus size: 29
1127227 ACATGATAAG
*
1127237 AAAATGATATACAAATAATTAAAAATAATAT
1 AAAAT-ATATACAAATAATAAAAAAT-ATAT
*
1127268 AAAATATGATACAACATGATAAAAAATATAT
1 AAAATAT-ATACAA-ATAATAAAAAATATAT
*
1127299 AAATATTATATAAAAAT-ATAAAAA
1 AAA-A-TATATACAAATAATAAAAA
1127323 CGTATTAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
30 9 0.19
31 20 0.42
32 16 0.33
33 3 0.06
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.28
Consensus pattern (29 bp):
AAAATATATACAAATAATAAAAAATATAT
Found at i:1127295 original size:22 final size:21
Alignment explanation
Indices: 1127240--1127323 Score: 66
Period size: 21 Copynumber: 4.0 Consensus size: 21
1127230 TGATAAGAAA
* *
1127240 ATGATATACAAATA-ATTAAAA
1 ATGATATAAAAATATA-TAAAC
*
1127261 ATAATAT-AAAATATGATACAAC
1 ATGATATAAAAATAT-ATA-AAC
*
1127283 ATGATA-AAAAATATATAAAT
1 ATGATATAAAAATATATAAAC
* *
1127303 ATTATATAAAAATATAAAAAC
1 ATGATATAAAAATATATAAAC
1127324 GTATTAAAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
20 12 0.24
21 23 0.46
22 15 0.30
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.29
Consensus pattern (21 bp):
ATGATATAAAAATATATAAAC
Found at i:1127630 original size:24 final size:23
Alignment explanation
Indices: 1127590--1127640 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
1127580 ATACTTAACC
*
1127590 TTAATTTTTACTTAAATAAATATT
1 TTAATTTATACTTAAATAAAT-TT
1127614 TTAATTTATA-TTCAAATAAATTT
1 TTAATTTATACTT-AAATAAATTT
1127637 TTAA
1 TTAA
1127641 CATTTAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 8 0.32
24 17 0.68
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (23 bp):
TTAATTTATACTTAAATAAATTT
Found at i:1127641 original size:53 final size:55
Alignment explanation
Indices: 1127550--1127664 Score: 144
Period size: 54 Copynumber: 2.1 Consensus size: 55
1127540 ATTTCATATT
* * * *
1127550 AATAAATTTTTTATTATTACATTTAAATAAATACTTAAC-CTTAATTTTTACTTA
1 AATAAATATTTTAATATTACATTCAAATAAATACTTAACACTTAATTTATACTTA
* ** *
1127604 AATAAATATTTTAAT-TTATATTCAAATAAATTTTTAACATTTAATTTATACTTA
1 AATAAATATTTTAATATTACATTCAAATAAATACTTAACACTTAATTTATACTTA
1127658 AATAAAT
1 AATAAAT
1127665 TATTATTATA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
53 19 0.37
54 33 0.63
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (55 bp):
AATAAATATTTTAATATTACATTCAAATAAATACTTAACACTTAATTTATACTTA
Found at i:1127703 original size:19 final size:18
Alignment explanation
Indices: 1127656--1127699 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
1127646 AATTTATACT
*
1127656 TAAAT-AAATTATTATTA
1 TAAATAAAATTTTTATTA
1127673 TAAATAAAATTTTTATT-
1 TAAATAAAATTTTTATTA
1127690 TAAAATAAAA
1 T-AAATAAAA
1127700 ATTTATGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TAAATAAAATTTTTATTA
Found at i:1127710 original size:18 final size:18
Alignment explanation
Indices: 1127657--1127716 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
1127647 ATTTATACTT
*
1127657 AAATAAATTA-TTA-TTA
1 AAATAAAATATTTATTTA
*
1127673 TAAATAAAATTTTTATTTA
1 -AAATAAAATATTTATTTA
1127692 AAATAAAA-ATTTATGTTA
1 AAATAAAATATTTAT-TTA
*
1127710 ATATAAA
1 AAATAAA
1127717 TAAAAAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 13 0.36
18 20 0.56
19 3 0.08
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (18 bp):
AAATAAAATATTTATTTA
Found at i:1127755 original size:29 final size:28
Alignment explanation
Indices: 1127691--1127774 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 28
1127681 ATTTTTATTT
*
1127691 AAAATAAAAATTTATGTTAATATAAATAA
1 AAAATAAGAATTTAT-TTAATATAAATAA
1127720 AAAATAATG-ATTTATTTGAATAT-AATAA
1 AAAATAA-GAATTTATTT-AATATAAATAA
*
1127748 TAATATAAGAATTTATTTAA-A-AAATAA
1 -AAAATAAGAATTTATTTAATATAAATAA
1127775 TTTGAGGATT
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
27 6 0.12
28 10 0.21
29 32 0.67
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (28 bp):
AAAATAAGAATTTATTTAATATAAATAA
Found at i:1128288 original size:18 final size:20
Alignment explanation
Indices: 1128251--1128312 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 20
1128241 AGAATTTGGG
*
1128251 TTTTAAAAAATAAATTTAAA
1 TTTTAAAAAATAAATATAAA
1128271 TTTT-AAAAAT-AATATAAA
1 TTTTAAAAAATAAATATAAA
*
1128289 TTATATAATAAAATACATATAAA
1 TT-T-TAA-AAAATAAATATAAA
1128312 T
1 T
1128313 ATAGCAGTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
18 9 0.26
19 7 0.20
20 5 0.14
21 1 0.03
22 5 0.14
23 8 0.23
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
TTTTAAAAAATAAATATAAA
Found at i:1129723 original size:7 final size:7
Alignment explanation
Indices: 1129711--1129771 Score: 51
Period size: 6 Copynumber: 9.3 Consensus size: 7
1129701 TATATTTTAA
1129711 TAATATT
1 TAATATT
1129718 TAATATT
1 TAATATT
*
1129725 TAAAATTT
1 TAATA-TT
*
1129733 TAATATA
1 TAATATT
1129740 TAATA-T
1 TAATATT
1129746 T-ATATT
1 TAATATT
1129752 T-ATATT
1 TAATATT
*
1129758 T-ATATC
1 TAATATT
1129764 T-ATATT
1 TAATATT
1129770 TA
1 TA
1129772 TATAAAATAT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
5 3 0.07
6 19 0.42
7 17 0.38
8 6 0.13
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (7 bp):
TAATATT
Found at i:1129736 original size:15 final size:17
Alignment explanation
Indices: 1129683--1129759 Score: 61
Period size: 15 Copynumber: 4.4 Consensus size: 17
1129673 TATAAAATCG
*
1129683 TATTTAATAAATTATGTATA
1 TATTTAAT-AA-TATTTA-A
1129703 TATTTTAATAATATTTAA
1 TA-TTTAATAATATTTAA
1129721 TATTTAA-AAT-TTTAA
1 TATTTAATAATATTTAA
*
1129736 TATATAATATTATATTT-A
1 TATTTAATA--ATATTTAA
1129754 TATTTA
1 TATTTA
1129760 TATCTATATT
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
15 11 0.22
16 4 0.08
17 5 0.10
18 11 0.22
19 8 0.16
20 4 0.08
21 6 0.12
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (17 bp):
TATTTAATAATATTTAA
Found at i:1130575 original size:13 final size:13
Alignment explanation
Indices: 1130554--1130586 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
1130544 TTTTACTTAC
*
1130554 ATGATTGATAGGT
1 ATGAGTGATAGGT
1130567 ATGAGTGATAGGT
1 ATGAGTGATAGGT
1130580 ATGAGTG
1 ATGAGTG
1130587 TACCCAATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.36, T:0.33
Consensus pattern (13 bp):
ATGAGTGATAGGT
Found at i:1132801 original size:2 final size:2
Alignment explanation
Indices: 1132794--1132821 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1132784 ATATTCGGAC
1132794 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
1132822 GATTCTTCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1133128 original size:27 final size:24
Alignment explanation
Indices: 1133098--1133156 Score: 64
Period size: 27 Copynumber: 2.3 Consensus size: 24
1133088 GACTGAGAAT
1133098 TTATAAAAAAATAATTAAAATATGATG
1 TTATAAAAAAATAA-TAAAA-AT-ATG
* *
1133125 TTATATAAAAATTAATATAAATATG
1 TTATA-AAAAAATAATAAAAATATG
1133150 TTATAAA
1 TTATAAA
1133157 TATTTAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
24 2 0.07
25 8 0.28
26 2 0.07
27 9 0.31
28 8 0.28
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (24 bp):
TTATAAAAAAATAATAAAAATATG
Found at i:1133185 original size:19 final size:19
Alignment explanation
Indices: 1133132--1133186 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 19
1133122 ATGTTATATA
*
1133132 AAAATTAATATAAATATGTT
1 AAAATTTATAT-AATATGTT
*
1133152 ATAAATATT-TA-AATATTTT
1 A-AAAT-TTATATAATATGTT
1133171 AAAATTTATATAATAT
1 AAAATTTATATAATAT
1133187 AAAATATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
17 2 0.07
18 6 0.21
19 13 0.45
20 1 0.03
21 6 0.21
22 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
AAAATTTATATAATATGTT
Found at i:1133189 original size:16 final size:16
Alignment explanation
Indices: 1133151--1133221 Score: 67
Period size: 16 Copynumber: 4.4 Consensus size: 16
1133141 ATAAATATGT
* *
1133151 TATAAATATTTAAATAT
1 TATAAA-ATTTATATAA
*
1133168 TTTAAAATTTATATAA
1 TATAAAATTTATATAA
1133184 TATAAAATATTAT-TAA
1 TATAAAAT-TTATATAA
1133200 -ATTAAAATTTATATAA
1 TA-TAAAATTTATATAA
1133216 -ATAAAA
1 TATAAAA
1133222 AATATTTTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
15 10 0.21
16 28 0.60
17 9 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TATAAAATTTATATAA
Found at i:1133207 original size:32 final size:32
Alignment explanation
Indices: 1133169--1133233 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 32
1133159 TTTAAATATT
*
1133169 TTAAAATTTATAT-AATATAAAATATTATTAAA
1 TTAAAATTTATATAAATAAAAAATATT-TTAAA
1133201 TTAAAATTTATATAAATAAAAAATATTTTAAA
1 TTAAAATTTATATAAATAAAAAATATTTTAAA
1133233 T
1 T
1133234 ATAATTATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 19 0.61
33 12 0.39
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (32 bp):
TTAAAATTTATATAAATAAAAAATATTTTAAA
Found at i:1133232 original size:16 final size:17
Alignment explanation
Indices: 1133170--1133237 Score: 74
Period size: 16 Copynumber: 4.2 Consensus size: 17
1133160 TTAAATATTT
1133170 TAAAAT-TTA-TATAATA
1 TAAAATATTATTA-AATA
1133186 TAAAATATTATTAAAT-
1 TAAAATATTATTAAATA
1133202 TAAAAT-TTATATAAATA
1 TAAAATATTAT-TAAATA
*
1133219 AAAAATATT-TTAAATA
1 TAAAATATTATTAAATA
1133235 TAA
1 TAA
1133238 TTATAATAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
15 4 0.09
16 25 0.56
17 12 0.27
18 4 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAAATATTATTAAATA
Found at i:1134173 original size:100 final size:94
Alignment explanation
Indices: 1134002--1134189 Score: 241
Period size: 100 Copynumber: 1.9 Consensus size: 94
1133992 TAGAGTTTGG
* * * * *
1134002 TTGAAAACGATGACCTTTGCTTGGGGACTTGCTGGCAGCAAATACTCAGTGTGGGTTAGCAGGCT
1 TTGAAAACCATGACCTTTGCTAGGGGACTTGCTGACAGCAAATACTCACTGTAGGTTAGCAGGCT
1134067 TGTCAATGGTGGAGAAGAAGAAATAATATC
66 TGTCAATGGTGGAGAAGAA-AAATAATATC
* * *
1134097 TTGAAAACCATGATCTGTATGCTAGGGGACTTGCTGACAGCAAGTACCCTTCACTGTAGGTTATC
1 TTGAAAACCATGACCT-T-TGCTAGGGGACTTGCTGACAGCAAATA--C-TCACTGTAGGTTAGC
*
1134162 AGGCTTGTCAATGGTGGAGGAGAAAAAT
61 AGGCTTGTCAATGGTGGAGAAGAAAAAT
1134190 TATCCAAGGA
Statistics
Matches: 79, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
95 14 0.18
96 1 0.01
97 24 0.30
99 5 0.06
100 35 0.44
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (94 bp):
TTGAAAACCATGACCTTTGCTAGGGGACTTGCTGACAGCAAATACTCACTGTAGGTTAGCAGGCT
TGTCAATGGTGGAGAAGAAAAATAATATC
Found at i:1134756 original size:34 final size:34
Alignment explanation
Indices: 1134678--1134894 Score: 249
Period size: 34 Copynumber: 6.4 Consensus size: 34
1134668 GTCTATTGTG
*
1134678 TGTTGATTAAAT-GGTGATTTGGTAGTTTACCAT
1 TGTTGATTAAATGGGTGATTTGGTAGCTTACCAT
* * * * **
1134711 TATTGATTAAATGGGTGATTTAGTGGTTTGTCAT
1 TGTTGATTAAATGGGTGATTTGGTAGCTTACCAT
* *
1134745 TGTTGACTAAATGGGAGATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGTGATTTGGTAGCTTACCAT
* **
1134779 TGTTGATTAAATGAGAAATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGTGATTTGGTAGCTTACCAT
* *
1134813 TATTGATTAAATGGGTGATTTGGTGGCTTACCAT
1 TGTTGATTAAATGGGTGATTTGGTAGCTTACCAT
* * * *
1134847 TGTTGACTAAAT-GGTAGATTTAGTAGGTTGCCAT
1 TGTTGATTAAATGGGT-GATTTGGTAGCTTACCAT
1134881 TGTTGATTAAATGG
1 TGTTGATTAAATGG
1134895 TGGTTTTTAC
Statistics
Matches: 153, Mismatches: 28, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
33 14 0.09
34 138 0.90
35 1 0.01
ACGTcount: A:0.26, C:0.07, G:0.25, T:0.41
Consensus pattern (34 bp):
TGTTGATTAAATGGGTGATTTGGTAGCTTACCAT
Found at i:1134881 original size:102 final size:101
Alignment explanation
Indices: 1134678--1134894 Score: 326
Period size: 102 Copynumber: 2.1 Consensus size: 101
1134668 GTCTATTGTG
** * * **
1134678 TGTTGATTAAATGGTGATTTGGTAGTTTACCATTATTGATTAAATGGGTGATTTAGTGGTTTGTC
1 TGTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTAGTGGCTTACC
*
1134743 ATTGTTGACTAAATGGGAGATTTGGTAGCTTACCAT
66 ATTGTTGACTAAATGGGAGATTTAGTAGCTTACCAT
*
1134779 TGTTGATTAAATGAGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTAC
1 TGTTGATTAAATG-GAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTAGTGGCTTAC
* * *
1134844 CATTGTTGACTAAATGGTAGATTTAGTAGGTTGCCAT
65 CATTGTTGACTAAATGGGAGATTTAGTAGCTTACCAT
1134881 TGTTGATTAAATGG
1 TGTTGATTAAATGG
1134895 TGGTTTTTAC
Statistics
Matches: 104, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
101 14 0.13
102 90 0.87
ACGTcount: A:0.26, C:0.07, G:0.25, T:0.41
Consensus pattern (101 bp):
TGTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTAGTGGCTTACC
ATTGTTGACTAAATGGGAGATTTAGTAGCTTACCAT
Found at i:1139355 original size:34 final size:34
Alignment explanation
Indices: 1139298--1139516 Score: 280
Period size: 34 Copynumber: 6.5 Consensus size: 34
1139288 AAGTGGGAGA
*
1139298 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* * * *
1139331 ATTATTGATTAAATGGGTGATTTGGTGGTTTGCC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* *
1139365 ATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* **
1139399 ATTGTTGATTAAATGAGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* *
1139433 ATTATTGATTAAATGGGTGATTTGGTGGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* * *
1139467 ATTGTTGACTAAAT-GGTAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGT-GATTTGGTAGCTTACC
1139501 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
1139517 TGGTTTTTAC
Statistics
Matches: 160, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
33 16 0.10
34 143 0.89
35 1 0.01
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.41
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
Found at i:1139438 original size:102 final size:101
Alignment explanation
Indices: 1139298--1139516 Score: 357
Period size: 102 Copynumber: 2.2 Consensus size: 101
1139288 AAGTGGGAGA
** * * *
1139298 ATTGTTGATTAAATGGTGATTTGGTAGTTTACCATTATTGATTAAATGGGTGATTTGGTGGTTTG
1 ATTGTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTA
1139363 CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
66 CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
1139399 ATTGTTGATTAAATGAGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTT
1 ATTGTTGATTAAATG-GAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTT
* * *
1139464 ACCATTGTTGACTAAATGGTAGATTTGGTAGGTTGCC
65 ACCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
1139501 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
1139517 TGGTTTTTAC
Statistics
Matches: 109, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
101 16 0.15
102 93 0.85
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.41
Consensus pattern (101 bp):
ATTGTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTA
CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
Found at i:1140699 original size:43 final size:43
Alignment explanation
Indices: 1140652--1140739 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
1140642 ATTATGAAAC
1140652 TTATTAAAATAATATTATTTCACATTAATTAAATTTTAAATTT
1 TTATTAAAATAATATTATTTCACATTAATTAAATTTTAAATTT
*
1140695 TTATTAAAGTAATATTATTTCACATTAATTAAATTTTAAATTT
1 TTATTAAAATAATATTATTTCACATTAATTAAATTTTAAATTT
1140738 TT
1 TT
1140740 TATAATCTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.42, C:0.05, G:0.01, T:0.52
Consensus pattern (43 bp):
TTATTAAAATAATATTATTTCACATTAATTAAATTTTAAATTT
Found at i:1140754 original size:24 final size:25
Alignment explanation
Indices: 1140726--1140783 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 25
1140716 ACATTAATTA
1140726 AATTTTAAATTTTTTATAATC--TT
1 AATTTTAAATTTTTTATAATCATTT
*
1140749 -ATATTTAAA-TTTTTATTATCATTT
1 AAT-TTTAAATTTTTTATAATCATTT
1140773 AATTTTAAATT
1 AATTTTAAATT
1140784 AAATATTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
22 12 0.41
23 6 0.21
24 8 0.28
25 3 0.10
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.60
Consensus pattern (25 bp):
AATTTTAAATTTTTTATAATCATTT
Found at i:1140777 original size:23 final size:25
Alignment explanation
Indices: 1140727--1140783 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
1140717 CATTAATTAA
1140727 ATTTTAAA-TTTTTTATAATCTTAT
1 ATTTTAAATTTTTTTATAATCTTAT
*
1140751 A-TTTAAATTTTTATTATCAT-TTA-
1 ATTTTAAATTTTT-TTATAATCTTAT
1140774 ATTTTAAATT
1 ATTTTAAATT
1140784 AAATATTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
23 7 0.24
24 16 0.55
25 6 0.21
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (25 bp):
ATTTTAAATTTTTTTATAATCTTAT
Found at i:1141735 original size:17 final size:17
Alignment explanation
Indices: 1141715--1141751 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
1141705 AAAAAAATTA
*
1141715 ATTTAATAAATTTGAAT
1 ATTTAATAAATTTAAAT
*
1141732 ATTTAATGAATTTAAAT
1 ATTTAATAAATTTAAAT
1141749 ATT
1 ATT
1141752 CAACAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (17 bp):
ATTTAATAAATTTAAAT
Found at i:1141899 original size:13 final size:14
Alignment explanation
Indices: 1141876--1141905 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
1141866 TTTAGACAAT
1141876 AAATAAATAATAAA
1 AAATAAATAATAAA
1141890 AAAT-AATAATAAA
1 AAATAAATAATAAA
1141903 AAA
1 AAA
1141906 GCTTAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (14 bp):
AAATAAATAATAAA
Found at i:1143670 original size:12 final size:12
Alignment explanation
Indices: 1143649--1143775 Score: 64
Period size: 12 Copynumber: 10.2 Consensus size: 12
1143639 TATTATTTTA
1143649 ATAT-TATAATT
1 ATATATATAATT
1143660 ATATATATAATT
1 ATATATATAATT
* **
1143672 ATATAAATTTTT
1 ATATATATAATT
1143684 ATATATTAATAATTT
1 ATATA-T-ATAA-TT
1143699 ATATAGTATAAATT
1 ATATA-TAT-AATT
* *
1143713 TTAATATATTATT
1 AT-ATATATAATT
* *
1143726 ATATTTATATTT
1 ATATATATAATT
*
1143738 TTATATA-ATATT
1 ATATATATA-ATT
*
1143750 ATAT-TTTATATT
1 ATATATATA-ATT
1143762 ATAT-TATTAATT
1 ATATATA-TAATT
1143774 AT
1 AT
1143776 TTTATTTTAT
Statistics
Matches: 88, Mismatches: 19, Indels: 17
0.71 0.15 0.14
Matches are distributed among these distances:
11 6 0.07
12 53 0.60
13 6 0.07
14 10 0.11
15 13 0.15
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.57
Consensus pattern (12 bp):
ATATATATAATT
Found at i:1143714 original size:32 final size:33
Alignment explanation
Indices: 1143643--1143735 Score: 102
Period size: 32 Copynumber: 2.8 Consensus size: 33
1143633 TATTCATATT
*
1143643 ATTTTAATAT-TATAATTATATATATAATTA-TATAA
1 ATTTTAATATAT-TAA-TATATTTAT-A-TAGTATAA
*
1143678 ATTTTTATATATTAATA-ATTTATATAGTATAA
1 ATTTTAATATATTAATATATTTATATAGTATAA
*
1143710 ATTTTAATATATTATTATATTTATAT
1 ATTTTAATATATTAATATATTTATAT
1143736 TTTTATATAA
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
31 2 0.04
32 21 0.41
33 13 0.25
34 2 0.04
35 12 0.24
36 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (33 bp):
ATTTTAATATATTAATATATTTATATAGTATAA
Found at i:1143756 original size:17 final size:18
Alignment explanation
Indices: 1143730--1143768 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
1143720 ATTATTATAT
1143730 TTATATTTTTATATAATA
1 TTATATTTTTATATAATA
*
1143748 TTATA-TTTTATATTATA
1 TTATATTTTTATATAATA
1143765 TTAT
1 TTAT
1143769 TAATTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATATTTTTATATAATA
Found at i:1143779 original size:39 final size:37
Alignment explanation
Indices: 1143649--1143780 Score: 89
Period size: 35 Copynumber: 3.5 Consensus size: 37
1143639 TATTATTTTA
* *
1143649 ATATTA-TAATTA-TATATATAATTATATAAATTT--TT
1 ATATTATTAATTATTTTATATAA-TATA-AATTTTAATT
* *
1143684 ATA-TATTAA-TAATTTATATAGTATAAATTTTAA-T
1 ATATTATTAATTATTTTATATAATATAAATTTTAATT
*
1143718 ATATTATTATATTTATATTTTTATATAATATTATATTTTATATT
1 ATATTATTA-A--T-TA-TTTTATATAATA-TAAATTTTA-ATT
1143762 ATATTATTAATTATTTTAT
1 ATATTATTAATTATTTTAT
1143781 TTTATTTTAC
Statistics
Matches: 77, Mismatches: 6, Indels: 24
0.72 0.06 0.22
Matches are distributed among these distances:
33 5 0.06
34 12 0.16
35 18 0.23
36 1 0.01
39 6 0.08
40 4 0.05
41 11 0.14
42 8 0.10
43 2 0.03
44 10 0.13
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.58
Consensus pattern (37 bp):
ATATTATTAATTATTTTATATAATATAAATTTTAATT
Found at i:1143780 original size:17 final size:17
Alignment explanation
Indices: 1143640--1143786 Score: 59
Period size: 17 Copynumber: 8.9 Consensus size: 17
1143630 TTATATTCAT
1143640 ATTATTTTAATATTA-TA
1 ATTATTTT-ATATTATTA
*
1143657 ATTATATATATAATTATATA
1 ATTAT-TTTAT-ATTAT-TA
*
1143677 AAT-TTTTATA-TATTA
1 ATTATTTTATATTATTA
* *
1143692 ATAATTTATATAGTA-TA
1 ATTATTT-TATATTATTA
1143709 A--ATTTTA-ATATATT-
1 ATTATTTTATAT-TATTA
*
1143723 ATTATATTTATATTTTTA
1 ATTAT-TTTATATTATTA
* *
1143741 TATAATATTATATT-TT-
1 -ATTATTTTATATTATTA
1143757 A-TA--TTATATTATTA
1 ATTATTTTATATTATTA
*
1143771 ATTATTTTATTTTATT
1 ATTATTTTATATTATT
1143787 TTACATCATC
Statistics
Matches: 99, Mismatches: 11, Indels: 40
0.66 0.07 0.27
Matches are distributed among these distances:
12 7 0.07
13 3 0.03
14 7 0.07
15 11 0.11
16 8 0.08
17 33 0.33
18 21 0.21
19 5 0.05
20 4 0.04
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (17 bp):
ATTATTTTATATTATTA
Done.